{"meta":{"query_hash":"b571de4cc273","filters":{"venue":"Molecular Systems Biology"},"cohort_total":130,"direct_labels_cover":0,"predictions_cover":130,"exported":130,"export_cap":100000,"truncated":false,"label_status":"direct model label, unvalidated","prediction_status":"machine_predicted_unvalidated (Codex and Gemma teacher distillation)","score_status":"score_only:v0-immature-baseline","snapshot":{"source":"OpenAlex, pinned release, all 482 partitions","release":"2026-06-24","frame_built":"2026-07-12"},"permalink":"https://metacan.xera.ac/q/b571de4cc273","api":"https://metacan.xera.ac/api/v1/cohort?venue=Molecular+Systems+Biology"},"results":[{"id":"W1754578874","doi":"10.15252/msb.20156157","title":"Do genome‐scale models need exact solvers or clearer standards?","year":2015,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":64,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; National Center for Advancing Translational Sciences; Biotechnology and Biological Sciences Research Council; Novo Nordisk Fonden","keywords":"Biology; Computational biology; Scale (ratio); Genome; Genetics; Gene","score_opus":0.01545478141534226,"score_gpt":0.24434605999257775,"score_spread":0.22889127857723549,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1754578874","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.24729231,0.1391579,0.3599422,0.1484069,0.05385659,0.012487756,0.0147146685,0.0015848367,0.022556845],"genre_scores_gemma":[0.7329023,0.0041281325,0.0024953496,0.15222916,0.04926599,0.00071375223,0.024800494,0.0013545892,0.032110244],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9967042,0.00038751392,0.0005759345,0.0012137364,0.0003435494,0.00077504443],"domain_scores_gemma":[0.99783987,0.0000050226904,0.00027642905,0.0012153925,0.00051654625,0.00014671915],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.00070351874,0.0006589363,0.0008159996,0.00023468895,0.00007730027,0.00008863081,0.00055326783,0.0022572572,0.000032207303],"category_scores_gemma":[0.00010754072,0.000538513,0.00027792485,0.00020509046,0.00015108718,0.0000059243366,0.00021617068,0.0007995733,0.000038839724],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000992507,0.000016640757,0.000003306559,0.00017180882,0.0002679018,0.00007829836,0.000036433205,0.001355222,0.52148646,0.000016486392,0.4762331,0.00023509648],"study_design_scores_gemma":[0.0005491435,0.00041917883,9.917467e-7,0.00005295189,0.000097521915,0.0002602297,0.00004340006,0.000090509275,0.01148395,0.000022311377,0.9862703,0.0007095043],"about_ca_topic_score_codex":0.0002024142,"about_ca_topic_score_gemma":0.000009395313,"teacher_disagreement_score":0.5100372,"about_ca_system_score_codex":0.0001382122,"about_ca_system_score_gemma":0.00040221153,"threshold_uncertainty_score":0.9997066},"labels":[],"label_agreement":null},{"id":"W1760492284","doi":"10.15252/msb.20156170","title":"Phosphoproteome dynamics of Saccharomyces cerevisiae under heat shock and cold stress","year":2015,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":66,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Cancer Research Society","keywords":"Saccharomyces cerevisiae; Biology; Phosphoproteomics; Cell biology; Heat shock protein; Heat shock; Cyclin-dependent kinase 1; CDC37; Proteostasis; Cell cycle; Protein phosphorylation; Kinase; Signal transduction; Cell Cycle Protein; Transcriptome; Yeast; Protein kinase A; Cell; Biochemistry; Gene expression; Gene","score_opus":0.015058090470826862,"score_gpt":0.2659542041519962,"score_spread":0.2508961136811694,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1760492284","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9762125,0.01609325,0.0056499597,0.0002551482,0.00025386122,0.00043662917,0.00016139192,0.000011333155,0.0009259015],"genre_scores_gemma":[0.99874485,0.00022120471,0.0002802235,0.000058922113,0.000088825116,0.000043509823,0.00018461933,0.000027985672,0.0003498437],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99855995,0.00020735584,0.00030123105,0.00043317082,0.00016372536,0.00033457816],"domain_scores_gemma":[0.99893844,0.000011819575,0.00007380317,0.00055046665,0.00022299755,0.0002024788],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002740114,0.00020014225,0.00031637982,0.00007146473,0.000036578193,0.000025854673,0.00034093353,0.00029574597,0.0000054542857],"category_scores_gemma":[0.00007817345,0.0001747171,0.0000686973,0.00011659261,0.0002018148,0.0000025612414,0.00038870788,0.00010657755,0.0000073336805],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00007484202,0.00004778378,0.008524238,0.00011219209,0.0001073314,0.000007898951,0.00002131285,0.00053203624,0.98665863,0.003469062,0.00025144796,0.00019319377],"study_design_scores_gemma":[0.0014428492,0.0016018812,0.00064227526,0.000081155704,0.000035315883,0.000094406125,0.0005698091,0.002684411,0.98571795,0.00040407383,0.006242359,0.00048353572],"about_ca_topic_score_codex":0.00029554567,"about_ca_topic_score_gemma":0.00005548374,"teacher_disagreement_score":0.022532342,"about_ca_system_score_codex":0.00002868469,"about_ca_system_score_gemma":0.00011266775,"threshold_uncertainty_score":0.7124757},"labels":[],"label_agreement":null},{"id":"W1965247368","doi":"10.1038/msb4100184","title":"The complexities of antibiotic action","year":2007,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":25,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"Canadian Institutes of Health Research; Canada Research Chairs; Advanced Foods and Materials Network","keywords":"Biology; Antibiotics; Action (physics); Computational biology; Microbiology","score_opus":0.0246927742477153,"score_gpt":0.2779000235185703,"score_spread":0.253207249270855,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1965247368","genre_codex":"commentary","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.23871808,0.007448151,0.030405458,0.5173978,0.040177003,0.004892719,0.0008467242,0.0003980196,0.15971601],"genre_scores_gemma":[0.8609981,0.00013229004,0.00014313428,0.124177,0.0015533195,0.000020289053,0.00043215588,0.00008042328,0.012463289],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9988851,0.00019448134,0.00031534515,0.0002340175,0.00008482,0.00028622898],"domain_scores_gemma":[0.9992745,0.000078678015,0.0002707028,0.00034350358,0.000014587164,0.000018063645],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00016487953,0.00016316246,0.00024485367,0.000039875293,0.00012071671,0.000029046692,0.00027963205,0.00044414029,0.00014549453],"category_scores_gemma":[0.000012723234,0.000112835536,0.0001204576,0.00008060128,0.00042472396,0.000024157393,0.0001163714,0.00048129447,0.00024043657],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000055727533,0.000008582687,0.000056891677,0.00005001722,0.000061596984,0.00004015525,0.000020429468,0.00001084571,0.5359498,0.00012631853,0.4627098,0.0009599299],"study_design_scores_gemma":[0.000047525915,0.000058450623,0.00047904882,0.000031154377,0.000021649459,0.00009445317,0.000029643676,0.000016297254,0.007148545,0.000026682847,0.9919264,0.000120168384],"about_ca_topic_score_codex":0.0026502367,"about_ca_topic_score_gemma":0.0001140357,"teacher_disagreement_score":0.62228,"about_ca_system_score_codex":0.00010169829,"about_ca_system_score_gemma":0.000007557119,"threshold_uncertainty_score":0.46012998},"labels":[],"label_agreement":null},{"id":"W1969124154","doi":"10.1038/msb.2011.68","title":"The MHC I immunopeptidome conveys to the cell surface an integrative view of cellular regulation","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":131,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"Canadian Institutes of Health Research; Canada Research Chairs","keywords":"Biology; Computational biology; Cell biology; Major histocompatibility complex; Immunology; Immune system","score_opus":0.013514100050633183,"score_gpt":0.22200343322930305,"score_spread":0.20848933317866986,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1969124154","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.93546915,0.009799334,0.050226565,0.00009629272,0.00047087346,0.000905572,0.000024047451,0.000012440199,0.0029957509],"genre_scores_gemma":[0.9985845,0.00018010964,0.00040344635,0.00009763393,0.000050771978,0.000050610706,0.0001285254,0.000023609802,0.0004807593],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9984715,0.00038474,0.0005073939,0.00026465562,0.00008967293,0.00028206327],"domain_scores_gemma":[0.99850684,0.000019706804,0.00026568136,0.00095814746,0.0001921801,0.000057412526],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007655016,0.00021818868,0.00025650344,0.00002695872,0.00016568317,0.00003178145,0.0006349791,0.00018141877,0.000007696355],"category_scores_gemma":[0.000042881566,0.00011783625,0.00011580116,0.00014084946,0.000121209996,0.000006768885,0.00018951893,0.00010702127,0.000023939663],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00006702028,0.000037352962,0.00015704415,0.000026796311,0.00008314995,4.9543956e-7,0.00066152593,0.00014604292,0.9950148,0.002856458,0.00023864898,0.0007106542],"study_design_scores_gemma":[0.00033827403,0.0010008892,0.00043051987,0.00002655187,0.00003119844,0.000013791868,0.0017558316,0.000855114,0.9578676,0.00009760945,0.037346154,0.00023641666],"about_ca_topic_score_codex":0.00026485053,"about_ca_topic_score_gemma":0.000025275316,"teacher_disagreement_score":0.06311541,"about_ca_system_score_codex":0.000012416701,"about_ca_system_score_gemma":0.00005189479,"threshold_uncertainty_score":0.48052227},"labels":[],"label_agreement":null},{"id":"W1970280063","doi":"10.1038/msb.2010.41","title":"Analysis of protein complexes through model‐based biclustering of label‐free quantitative AP‐MS data","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":35,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University of Toronto; Mount Sinai Hospital","funders":"National Cancer Institute; Canadian Institutes of Health Research; National Institutes of Health","keywords":"Biclustering; Cluster analysis; Context (archaeology); Computational biology; Data mining; Biology; Similarity (geometry); Computer science; Artificial intelligence; Fuzzy clustering; CURE data clustering algorithm; Image (mathematics)","score_opus":0.03817555632626823,"score_gpt":0.30364712795175725,"score_spread":0.265471571625489,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1970280063","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.5525488,0.00072970166,0.44505015,0.00003701882,0.00012174256,0.00033008642,0.00070913916,0.000007676612,0.00046568108],"genre_scores_gemma":[0.9747335,0.000009674323,0.023618482,0.00006800867,0.000032081643,0.000024513218,0.0014674225,0.000020103407,0.000026268013],"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.9984461,0.0001202196,0.00064748566,0.00040592492,0.00011427516,0.0002659807],"domain_scores_gemma":[0.99753314,0.00002219304,0.0004661994,0.0017505282,0.00017642167,0.00005151597],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00046174802,0.00020609262,0.00055950595,0.0001341888,0.000041835152,0.000013143427,0.00094581663,0.00032086726,0.000007065001],"category_scores_gemma":[0.00009662069,0.00018334217,0.00013586775,0.00030707958,0.00027042208,0.0000071060867,0.0005649196,0.00014133986,0.0000012203051],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000067447814,0.00006027589,0.00036221836,0.00011318518,0.00085635623,0.0000010672777,0.000058264126,0.011338168,0.9766818,0.010129817,0.000082181985,0.00024921284],"study_design_scores_gemma":[0.00091788697,0.00041367539,0.000078976576,0.000038905895,0.0003622555,0.0000041640133,0.00007685795,0.8524994,0.1431691,0.0005585,0.001553837,0.0003264068],"about_ca_topic_score_codex":0.000348327,"about_ca_topic_score_gemma":0.00030558713,"teacher_disagreement_score":0.84116125,"about_ca_system_score_codex":0.0000053981166,"about_ca_system_score_gemma":0.00008799766,"threshold_uncertainty_score":0.7476477},"labels":[],"label_agreement":null},{"id":"W1976368356","doi":"10.15252/msb.20145141","title":"Intercellular network structure and regulatory motifs in the human hematopoietic system","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":80,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University Health Network; Heart and Stroke Foundation; Hospital for Sick Children; Princess Margaret Cancer Centre; University of Toronto","funders":"National Institute of General Medical Sciences; Terry Fox Research Institute; Canadian Cancer Society Research Institute; National Institutes of Health; Ontario Genomics; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; Ontario Ministry of Health and Long-Term Care; Stem Cell Network; National Center for Research Resources; Ontario Genomics Institute; Hospital for Sick Children; Leukemia and Lymphoma Society of Canada; Princess Margaret Hospital Foundation; Sick Kids Foundation; Genome Canada; Leukemia and Lymphoma Society; Canadian Institutes of Health Research; National Science Foundation","keywords":"Biology; Cell biology; Cell fate determination; Haematopoiesis; Hematopoietic stem cell; Cell type; Intracellular; Cell; Multicellular organism; Cellular differentiation; Stem cell; Transcription factor; Genetics; Gene","score_opus":0.006188711539900594,"score_gpt":0.20612459536018515,"score_spread":0.19993588382028457,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1976368356","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9806463,0.0030953018,0.014811964,0.00005151395,0.00047975002,0.00035060698,0.000007826785,0.000021715727,0.00053498027],"genre_scores_gemma":[0.99910367,0.000008835555,0.00006971411,0.00024614803,0.00036236603,0.000026800693,0.00010826506,0.000031329168,0.000042860436],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.998011,0.0006920596,0.00036825347,0.00047087308,0.0000955028,0.0003623129],"domain_scores_gemma":[0.999184,0.000019014029,0.00010636952,0.0005917776,0.0000379231,0.000060894195],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005605142,0.00024222615,0.0003207072,0.000049299953,0.00011672448,0.000047293794,0.00035082546,0.0003669689,0.0000018349363],"category_scores_gemma":[0.00002193314,0.00018008087,0.000080838996,0.000096014235,0.00015666173,0.0000023105845,0.00007868172,0.0001792447,0.0000026010853],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000018069042,0.00002272374,0.01657493,0.00019335804,0.000051095434,0.000015923806,0.00015442575,0.0006771583,0.9605931,0.021299476,0.00019043878,0.00020928017],"study_design_scores_gemma":[0.018655987,0.008679183,0.07092012,0.0028093762,0.00084261154,0.006435819,0.0055627264,0.038193043,0.6167364,0.009038248,0.213516,0.008610489],"about_ca_topic_score_codex":0.00011802809,"about_ca_topic_score_gemma":0.000054854023,"teacher_disagreement_score":0.34385672,"about_ca_system_score_codex":0.00001883952,"about_ca_system_score_gemma":0.000015715443,"threshold_uncertainty_score":0.7343485},"labels":[],"label_agreement":null},{"id":"W1984675437","doi":"10.1038/msb.2012.68","title":"Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":298,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Center for Research Resources; National Institute of General Medical Sciences; Canadian Institutes of Health Research; Tartu Ülikool","keywords":"Biology; Cancer; Gene; Somatic cell; Genetics; Mutation; Computational biology; Kinase; Genome; Cancer research; Cancer cell; Bioinformatics","score_opus":0.007326216168163774,"score_gpt":0.2389969449827303,"score_spread":0.23167072881456652,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1984675437","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95941406,0.0033776555,0.03596284,0.000028442993,0.00024449857,0.00078405417,0.00008871762,0.000007631738,0.000092075454],"genre_scores_gemma":[0.9987968,0.00008348529,0.00031063834,0.00005603435,0.00003088202,0.0003834955,0.0002913421,0.00001680387,0.00003051218],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9986664,0.000111529116,0.0006017743,0.00030670722,0.00009440009,0.00021915462],"domain_scores_gemma":[0.99907374,0.00006672517,0.00031607307,0.00033096093,0.00015286088,0.000059616563],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00019440542,0.00015427168,0.00047608398,0.00028427798,0.00002963474,0.000021215128,0.00016445306,0.00018494473,0.000018830151],"category_scores_gemma":[0.00016663587,0.00014834039,0.00015036123,0.00040039961,0.000063094696,0.000004235572,0.000052689567,0.000053081254,0.000005747577],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000056427216,0.000053060678,0.020681117,0.0008025359,0.0009715767,0.0000014612762,0.00013809396,0.066755585,0.9099175,0.0006157152,0.000020002155,0.000037729067],"study_design_scores_gemma":[0.005002292,0.0010073041,0.06445836,0.0035993294,0.0059860675,0.000026032418,0.002688851,0.41552758,0.4989227,0.00052426703,0.0002918065,0.0019653945],"about_ca_topic_score_codex":0.001928947,"about_ca_topic_score_gemma":0.0002370884,"teacher_disagreement_score":0.41099477,"about_ca_system_score_codex":0.00005663246,"about_ca_system_score_gemma":0.00008801986,"threshold_uncertainty_score":0.60491455},"labels":[],"label_agreement":null},{"id":"W1990039203","doi":"10.1038/msb4100185","title":"Accurate prediction of gene feedback circuit behavior from component properties","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":77,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McGill University","funders":"National Institute of General Medical Sciences","keywords":"Biology; Synthetic biology; Electronic circuit; Computational biology; Gene regulatory network; Repressor; Gene; Component (thermodynamics); Biological system; Regulation of gene expression; Negative feedback; Systems biology; Genetics; Gene expression; Physics","score_opus":0.02158925266562783,"score_gpt":0.22994043685656934,"score_spread":0.2083511841909415,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1990039203","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.93307245,0.007264602,0.058469605,0.0000107409105,0.00050501036,0.00038507223,0.00010486688,0.000023401111,0.00016425725],"genre_scores_gemma":[0.9984522,0.000052444353,0.00020436483,0.000038498823,0.00030282812,0.000050568386,0.00075671246,0.000034978155,0.00010739809],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9981235,0.00021468026,0.00061866944,0.0005229121,0.00015363168,0.00036658588],"domain_scores_gemma":[0.9987592,0.000008736681,0.00028699968,0.0006474799,0.00018839868,0.00010917842],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00040171464,0.00023957415,0.00038575797,0.00010239845,0.00005951675,0.000014031957,0.00028062574,0.0003760632,0.00001045005],"category_scores_gemma":[0.000026285112,0.00021722996,0.00019598592,0.00014872127,0.00015839972,0.0000030865504,0.000098166456,0.00008652831,0.000013093883],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00005287621,0.00007397663,0.017053869,0.000018311976,0.00029009394,0.000011991978,0.000030973508,0.000745872,0.9810094,0.00006044391,0.000084073865,0.00056807423],"study_design_scores_gemma":[0.0005559785,0.0002721643,0.034814328,0.000026792091,0.00018987269,0.000038609604,0.00009768546,0.00046008851,0.9594915,0.00001290172,0.0037874342,0.00025264185],"about_ca_topic_score_codex":0.00034075917,"about_ca_topic_score_gemma":0.00003408881,"teacher_disagreement_score":0.06537976,"about_ca_system_score_codex":0.000034870907,"about_ca_system_score_gemma":0.00005008777,"threshold_uncertainty_score":0.8858381},"labels":[],"label_agreement":null},{"id":"W2024650850","doi":"10.1038/msb.2010.104","title":"Defining the budding yeast chromatin‐associated interactome","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":69,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Toronto Metropolitan University; University of Toronto; University of Ottawa","funders":"Canadian Cancer Society Research Institute; Government of Ontario; University of Ottawa","keywords":"Interactome; Biology; Chromatin; Budding yeast; Histone; Tandem affinity purification; Computational biology; Yeast; Transcription factor; Proteomics; Protein–protein interaction; Saccharomyces cerevisiae; Cell biology; Genetics; DNA; Gene; Biochemistry; Affinity chromatography; Enzyme","score_opus":0.006022698422055496,"score_gpt":0.2721469079431984,"score_spread":0.2661242095211429,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2024650850","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9916815,0.0017265477,0.0011524737,0.00019244425,0.0010773636,0.00025769247,0.00004184145,0.000026797486,0.0038433282],"genre_scores_gemma":[0.9986338,0.000019991938,0.00010648579,0.00017456511,0.00022922318,0.000070269096,0.00021023634,0.000034581684,0.0005208454],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9984634,0.00026819736,0.0002750015,0.0003949035,0.00014286392,0.00045562317],"domain_scores_gemma":[0.9990815,0.00003200097,0.0001161464,0.0005282916,0.00014070727,0.00010138304],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00051545765,0.00019337414,0.00019428195,0.00006175649,0.00016124528,0.00007241816,0.00049623614,0.00031393158,0.000028490442],"category_scores_gemma":[0.00043355746,0.00013744367,0.00011600752,0.00015200255,0.00017254298,0.0000022534084,0.00029129226,0.000362141,0.00011046724],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000013613657,0.000026166295,0.0031026884,0.000009547777,0.00008485199,0.000007899751,0.000037812002,0.000036347086,0.9923457,0.0031326304,0.0005025354,0.00070021494],"study_design_scores_gemma":[0.0008986284,0.0005792766,0.0041702082,0.000051576844,0.000033114105,0.00025789786,0.00019604761,0.0014875891,0.893333,0.00015057239,0.0982468,0.000595291],"about_ca_topic_score_codex":0.000092108836,"about_ca_topic_score_gemma":0.0001008242,"teacher_disagreement_score":0.09901269,"about_ca_system_score_codex":0.000012330435,"about_ca_system_score_gemma":0.00007736275,"threshold_uncertainty_score":0.56047904},"labels":[],"label_agreement":null},{"id":"W2029346055","doi":"10.1038/msb.2013.54","title":"A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":107,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"St. Michael's Hospital; University of Regina; Princess Margaret Cancer Centre; Ontario Institute for Cancer Research; Mount Sinai Hospital; Lunenfeld-Tanenbaum Research Institute; Saskatchewan Cancer Agency; University of Saskatchewan; University Health Network; University of Toronto","funders":"Canadian Institutes of Health Research; Canadian Institute for Advanced Research","keywords":"Biology; PTEN; Computational biology; Genetics; Gene; Cancer; Genome; Genomics; Genetic screen; Phenotype; PI3K/AKT/mTOR pathway; Signal transduction","score_opus":0.007405068352220564,"score_gpt":0.24618501523601433,"score_spread":0.23877994688379375,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2029346055","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.956261,0.03619963,0.0035871828,0.00017320439,0.0013330774,0.0009284872,0.00006408459,0.000016711678,0.001436648],"genre_scores_gemma":[0.9948264,0.00154116,0.00038228513,0.00046051538,0.00039236483,0.0008825433,0.000088879104,0.00003819029,0.0013876844],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9981198,0.0002540613,0.00060849247,0.00046141964,0.00007625047,0.00047997906],"domain_scores_gemma":[0.99902564,0.000025881007,0.00026712913,0.00042481223,0.00015684825,0.00009966173],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00016331406,0.00030037752,0.00036107728,0.000048381684,0.000059486283,0.000050205377,0.00026430655,0.00040278383,0.00017939089],"category_scores_gemma":[0.000015350928,0.00026837873,0.00012537291,0.00008076586,0.00009089553,0.000013280511,0.00014360913,0.00016729484,0.000046120105],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000040365918,0.00006856743,0.0038586762,0.00025128465,0.00008997231,0.0000034657141,0.00033498346,0.00412405,0.9850317,0.000084130595,0.003933029,0.002179727],"study_design_scores_gemma":[0.0070586875,0.002477066,0.0078836335,0.0007096508,0.00026375824,0.000101812526,0.007964723,0.04607883,0.8451683,0.0037801869,0.07423528,0.004278082],"about_ca_topic_score_codex":0.016070068,"about_ca_topic_score_gemma":0.0022727363,"teacher_disagreement_score":0.13986346,"about_ca_system_score_codex":0.00013632045,"about_ca_system_score_gemma":0.00009790359,"threshold_uncertainty_score":0.9999768},"labels":[],"label_agreement":null},{"id":"W2041295073","doi":"10.1038/msb.2009.101","title":"Chaperonin activity modulates codon adaptation","year":2010,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":5,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Occupational Cancer Research Centre; University of Toronto","funders":"","keywords":"Biology; Chaperonin; Adaptation (eye); Computational biology; Genetics; Gene; Neuroscience","score_opus":0.014383365715910262,"score_gpt":0.23321357038647136,"score_spread":0.2188302046705611,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2041295073","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.4613111,0.017035035,0.3187625,0.17474315,0.015520325,0.0058949525,0.0009352497,0.00039945636,0.0053982427],"genre_scores_gemma":[0.90949947,0.00018242621,0.0008958844,0.07650591,0.0055411304,0.00058159314,0.0030326417,0.00025364815,0.0035073017],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99689835,0.00073327875,0.00040240528,0.0010926507,0.00021610361,0.00065721356],"domain_scores_gemma":[0.9982124,0.000032969252,0.00042258613,0.0010948476,0.0001518879,0.00008530599],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.00038346904,0.0005977837,0.0006311224,0.00014492364,0.000121567464,0.00006962472,0.00057545217,0.0056597134,0.00003604951],"category_scores_gemma":[0.00012244617,0.0005617686,0.00029333806,0.00008461033,0.00014764571,0.0000040833133,0.00017712859,0.0014450056,0.00009618681],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00003214236,0.000018513001,0.000012402255,0.000098458724,0.00016709554,0.00007280747,0.000013156246,0.000039725765,0.9609483,0.00014590225,0.035283107,0.003168399],"study_design_scores_gemma":[0.00021532839,0.000318041,0.0000069075236,0.000036831378,0.000044981785,0.000084185755,0.000005824838,0.00024539683,0.3539362,0.00010954407,0.64447016,0.00052657595],"about_ca_topic_score_codex":0.00031527507,"about_ca_topic_score_gemma":0.000024627414,"teacher_disagreement_score":0.60918707,"about_ca_system_score_codex":0.00003110586,"about_ca_system_score_gemma":0.00013540554,"threshold_uncertainty_score":0.9996834},"labels":[],"label_agreement":null},{"id":"W2043460027","doi":"10.1038/msb.2010.108","title":"A comprehensive map of the mTOR signaling network","year":2010,"lang":"en","type":"review","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":244,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"","keywords":"SBML; PI3K/AKT/mTOR pathway; Systems biology; Biology; Computational biology; Regulator; Computer science; Markup language; Signal transduction; Bioinformatics; XML; World Wide Web; Cell biology; Genetics","score_opus":0.018369209449593384,"score_gpt":0.27597221408531547,"score_spread":0.2576030046357221,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2043460027","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.0008144322,0.99443096,0.0015970386,0.000016170552,0.002012007,0.0009673766,0.000061397805,0.00001418407,0.00008645592],"genre_scores_gemma":[0.0053563872,0.9907126,0.00046942188,0.0000851049,0.0018515339,0.00023025382,0.00065025967,0.0001663404,0.00047813496],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.99608225,0.0013285454,0.0010321874,0.00081798725,0.00017746759,0.0005615933],"domain_scores_gemma":[0.99646586,0.00004973457,0.0011176442,0.0020352756,0.00022446003,0.00010704278],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.0003686014,0.000627355,0.0020030478,0.00009183617,0.000118882184,0.000022558748,0.0013717987,0.0015452282,0.000011750964],"category_scores_gemma":[0.00005542423,0.00042781272,0.001549139,0.00032946913,0.00031555485,0.0000010196832,0.00083692395,0.00048897427,0.000028324825],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008566615,0.0003234516,0.0007481347,0.05080302,0.017178228,0.00009330753,0.000050679253,0.0070419004,0.2989649,0.0035463108,0.02890535,0.59225905],"study_design_scores_gemma":[0.00011837733,0.00007961842,0.0000017250571,0.0012307084,0.0008624281,0.000077684446,0.0000042904126,0.00002860181,0.0006644894,0.00002847731,0.9964961,0.0004075333],"about_ca_topic_score_codex":0.000029228255,"about_ca_topic_score_gemma":0.000010767325,"teacher_disagreement_score":0.9675907,"about_ca_system_score_codex":0.00002812949,"about_ca_system_score_gemma":0.00031743635,"threshold_uncertainty_score":0.9998174},"labels":[],"label_agreement":null},{"id":"W2051001876","doi":"10.1038/msb.2010.91","title":"Unraveling condition‐dependent networks of transcription factors that control metabolic pathway activity in yeast","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":70,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"SystemsX.ch; Uppsala Universitet; University of Toronto; Eidgenössische Technische Hochschule Zürich","keywords":"Biology; Transcription factor; Effector; Saccharomyces cerevisiae; Gene regulatory network; Transcription (linguistics); Regulation of gene expression; Metabolic network; Metabolic pathway; Cell biology; Genetics; Transcriptional regulation; Cis-regulatory module; Gene expression; Gene; Computational biology; Enhancer","score_opus":0.00654806075504089,"score_gpt":0.21280980945852013,"score_spread":0.20626174870347924,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2051001876","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9165074,0.0013877337,0.079955384,0.000018675535,0.0017014183,0.00029777517,0.0000753085,0.000016411006,0.00003988122],"genre_scores_gemma":[0.9993918,0.00007349258,0.000051058803,0.00001768355,0.00022324634,0.00002816597,0.00015415304,0.000021683101,0.000038737948],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9988362,0.00018318337,0.00026927376,0.00037409627,0.000073838935,0.0002633672],"domain_scores_gemma":[0.9994047,0.0000044540175,0.00014271803,0.0003238,0.000067910994,0.00005640094],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00037421053,0.00019566798,0.00034409398,0.00011298772,0.000030285311,0.000011775644,0.00014138296,0.0003864879,0.000005907854],"category_scores_gemma":[0.000051019688,0.00017553921,0.00011274484,0.00010463166,0.00007312997,0.0000051943885,0.000021083732,0.0002304211,0.0000014957952],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000039858507,0.000050278544,0.0032699157,0.00002514599,0.000060697286,0.0000016483627,0.000021243774,0.0025926703,0.9927484,0.00057118165,0.0000037123696,0.0006152646],"study_design_scores_gemma":[0.0007184945,0.00008594762,0.009253348,0.000014758298,0.000025483621,0.000023938295,0.000027922324,0.00071265793,0.98588836,0.000007702413,0.0030434658,0.00019792866],"about_ca_topic_score_codex":0.00037650045,"about_ca_topic_score_gemma":0.00011022534,"teacher_disagreement_score":0.082884364,"about_ca_system_score_codex":0.000007630003,"about_ca_system_score_gemma":0.00003111144,"threshold_uncertainty_score":0.7158281},"labels":[],"label_agreement":null},{"id":"W2061949512","doi":"10.1038/msb.2009.95","title":"Chemogenomic profiling predicts antifungal synergies","year":2009,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":81,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McGill University Health Centre; Biotechnology Research Institute; McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Biology; Profiling (computer programming); Computational biology; Antifungal; Bioinformatics; Microbiology; Computer science","score_opus":0.01255697351729213,"score_gpt":0.27505729457500755,"score_spread":0.2625003210577154,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2061949512","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9830231,0.0044218474,0.0039778724,0.00029679327,0.0003230712,0.0005627551,0.000012976196,0.0001420684,0.0072394894],"genre_scores_gemma":[0.99835104,0.000041164272,0.000381388,0.00037370462,0.00018399181,0.000013592529,0.000070760914,0.000015343003,0.0005689966],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9985847,0.000105532155,0.00035887797,0.0004335591,0.00013194967,0.00038541574],"domain_scores_gemma":[0.99919665,0.000021808346,0.00008623687,0.0004668532,0.00010803203,0.00012043464],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00029430128,0.00018741234,0.00046656668,0.00008442945,0.00006489301,0.00001795275,0.00011594964,0.00022964014,0.000016932225],"category_scores_gemma":[0.00014566621,0.00015184644,0.00013832393,0.00013719777,0.00009937448,0.000031652195,0.000025003765,0.00017918405,0.00006255977],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00013764127,0.000071609225,0.048353016,0.00010762862,0.000058336307,0.0001542338,0.000028234736,0.000012200114,0.9443254,0.0055215103,0.00023746614,0.0009927638],"study_design_scores_gemma":[0.004294169,0.0035684588,0.24959336,0.00062370254,0.00036797696,0.0008291394,0.00057474483,0.0028925154,0.72274476,0.0010461678,0.012340726,0.0011242492],"about_ca_topic_score_codex":0.000024514107,"about_ca_topic_score_gemma":0.0000013361639,"teacher_disagreement_score":0.22158056,"about_ca_system_score_codex":0.00007246859,"about_ca_system_score_gemma":0.00010968876,"threshold_uncertainty_score":0.61921185},"labels":[],"label_agreement":null},{"id":"W2096324459","doi":"10.1038/msb4100157","title":"Transcriptional responses to fatty acid are coordinated by combinatorial control","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":62,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Alberta","funders":"National Center for Research Resources; National Institute of General Medical Sciences; National Institutes of Health","keywords":"Biology; Computational biology; Fatty acid; Control (management); Cell biology; Genetics; Biochemistry; Artificial intelligence","score_opus":0.008022062209115988,"score_gpt":0.24242923132954242,"score_spread":0.23440716912042642,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2096324459","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.5065648,0.003062534,0.48735365,0.00028187214,0.0014504038,0.0006683736,0.00025964744,0.000038851907,0.00031986742],"genre_scores_gemma":[0.9980178,0.000011517183,0.0003179999,0.0007783983,0.00027498617,0.00011657768,0.00019250455,0.00004066428,0.00024957876],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.997827,0.00050551625,0.00041891387,0.00057330925,0.00015150977,0.0005237527],"domain_scores_gemma":[0.99899936,0.000036893707,0.00014452465,0.00041537365,0.0001825761,0.0002213009],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0009744703,0.00027886347,0.00036619455,0.00010032574,0.00011322427,0.000031595006,0.00033168241,0.00050764263,0.000017362108],"category_scores_gemma":[0.00024542224,0.00026499908,0.00013173102,0.0001503406,0.00007978003,0.0000029688558,0.000046440855,0.00010551419,0.000041503587],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0009971223,0.000063233434,0.0011421667,0.000015513908,0.00011809634,0.00002835495,0.000012118934,0.000006512264,0.9919046,0.0038790908,0.0014064335,0.0004267418],"study_design_scores_gemma":[0.0013836169,0.0007192292,0.0004519511,0.00002073053,0.000022564898,0.000045132747,0.000046527985,0.000006384501,0.91240823,0.00013208215,0.08443393,0.00032963586],"about_ca_topic_score_codex":0.00005568778,"about_ca_topic_score_gemma":0.000007751086,"teacher_disagreement_score":0.49145296,"about_ca_system_score_codex":0.000032140273,"about_ca_system_score_gemma":0.00005378834,"threshold_uncertainty_score":0.9999802},"labels":[],"label_agreement":null},{"id":"W2097187701","doi":"10.1038/msb4100051","title":"Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism","year":2006,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":52,"is_retracted":false,"has_abstract":false,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Alberta","funders":"Canadian Institutes of Health Research; National Institutes of Health; National Institute of General Medical Sciences; Canada Research Chairs; Howard Hughes Medical Institute","keywords":"Biology; Peroxisome; Biogenesis; Gene; Fatty acid metabolism; Gene expression profiling; Fatty acid; Myristic acid; Gene expression; Computational biology; Oleic acid; Lipid metabolism; Biochemistry; Genetics; Palmitic acid","score_opus":0.00793658119847462,"score_gpt":0.2105788774200887,"score_spread":0.2026422962216141,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2097187701","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95651424,0.011564464,0.030777343,0.000044873523,0.00071070227,0.0002523058,0.000025654268,0.000026825634,0.00008360139],"genre_scores_gemma":[0.996843,0.00005797244,0.0016595974,0.000028397712,0.0007048668,0.000058841913,0.00051484955,0.000022193864,0.00011032955],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99867946,0.00016062296,0.00031401144,0.00051137136,0.00006681066,0.00026774383],"domain_scores_gemma":[0.999548,0.0000032533135,0.00009071095,0.00025089955,0.00006164821,0.000045471257],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00025900837,0.00020003579,0.0002500356,0.00009234329,0.000052819847,0.000021417733,0.00007802379,0.00026356062,0.0000016736175],"category_scores_gemma":[0.00006074402,0.00017467816,0.000054412092,0.00011129553,0.00006903527,0.0000044684734,0.000082533676,0.000112584225,0.0000026232508],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000040472132,0.000031338004,0.006119656,0.00003935292,0.000016159633,0.0000044502244,0.0000033061667,0.00025436553,0.9927241,0.0004530749,0.0001547924,0.00015892572],"study_design_scores_gemma":[0.00048990105,0.000043326374,0.010892819,0.000020081397,0.000013102308,0.000050208557,0.000012538326,0.00009498252,0.9816606,0.0000536995,0.0064591854,0.00020957162],"about_ca_topic_score_codex":0.00015984067,"about_ca_topic_score_gemma":0.000023919374,"teacher_disagreement_score":0.04032872,"about_ca_system_score_codex":0.000013963837,"about_ca_system_score_gemma":0.000028215387,"threshold_uncertainty_score":0.7123169},"labels":[],"label_agreement":null},{"id":"W2098734267","doi":"10.15252/msb.20145487","title":"Integrated systems analysis reveals a molecular network underlying autism spectrum disorders","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Autism Spectrum Disorder Research","field":"Neuroscience","cited_by":139,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"National Human Genome Research Institute; National Institute of Mental Health; Department of Genetics, University of Alabama at Birmingham; National Institutes of Health; Hospital for Sick Children; Autism Speaks","keywords":"Autism; Biology; Corpus callosum; Interactome; Genetics; Gene; Candidate gene; Oligodendrocyte; Computational biology; Neuroscience; Psychology; Myelin; Central nervous system","score_opus":0.024995251828005105,"score_gpt":0.29294820386168763,"score_spread":0.2679529520336825,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2098734267","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.3327363,0.0029293867,0.6513234,0.0036358128,0.0013475827,0.0016673413,0.000039222956,0.0005301602,0.0057908054],"genre_scores_gemma":[0.9985225,0.00008064189,0.00012494191,0.00034066374,0.000064187465,0.0002709949,0.00006347404,0.000108761305,0.00042381513],"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.99072903,0.0042342003,0.000992308,0.0016681588,0.00059729686,0.0017790191],"domain_scores_gemma":[0.99728,0.00040087147,0.00044857687,0.0015103541,0.00001840892,0.00034177236],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0014009135,0.0006151284,0.0012475635,0.00085610105,0.00039675686,0.0003145528,0.0011990421,0.00048438425,0.00005362101],"category_scores_gemma":[0.00044747215,0.0005644102,0.00046341156,0.0038521057,0.00038512648,0.00011292927,0.00034245604,0.00067883113,0.0002719314],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00002856669,0.000072757924,0.004319318,0.00008515079,0.00039938485,0.00010481307,0.00009312819,0.02184838,0.14488783,0.8278166,0.000078734905,0.00026535153],"study_design_scores_gemma":[0.003205404,0.0017556307,0.0055066063,0.00038873588,0.0011965755,0.00035103527,0.00022199609,0.67705894,0.011250999,0.2666679,0.028678529,0.0037176893],"about_ca_topic_score_codex":0.0025173144,"about_ca_topic_score_gemma":0.00017337469,"teacher_disagreement_score":0.6657862,"about_ca_system_score_codex":0.00023087044,"about_ca_system_score_gemma":0.000105650055,"threshold_uncertainty_score":0.99968076},"labels":[],"label_agreement":null},{"id":"W2099291727","doi":"10.15252/msb.20145307","title":"Modeling cancer metabolism on a genome scale","year":2015,"lang":"en","type":"review","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":193,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Planning and Budgeting Committee of the Council for Higher Education of Israel; Israel Cancer Research Fund; Israeli Centers for Research Excellence; Azrieli Foundation; Israel Science Foundation; Cancer Research UK","keywords":"Tel aviv; Library science; Sociology; Computer science","score_opus":0.031341626424790006,"score_gpt":0.31320814029408317,"score_spread":0.2818665138692932,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2099291727","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.00079001294,0.9907375,0.0048099337,0.000011766567,0.0023792507,0.0007825366,0.00025111897,0.00004997152,0.0001878969],"genre_scores_gemma":[0.001851056,0.9937474,0.0001159324,0.000046607933,0.0023667098,0.00037855402,0.00088440377,0.00012674149,0.00048260926],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.99740833,0.00037436362,0.0006095353,0.00099672,0.00012904467,0.00048199084],"domain_scores_gemma":[0.99861664,0.0000019494494,0.00020447846,0.0008532628,0.00016466973,0.00015898446],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00045968994,0.0006138226,0.0015312448,0.00020724625,0.000054626187,0.00003506607,0.00042341914,0.00096553395,0.0000049334476],"category_scores_gemma":[0.00004600061,0.0004896912,0.00044052617,0.00021576157,0.00005186419,0.0000018172448,0.00014860653,0.00031630625,0.00006834331],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000059305894,0.00017044802,6.434112e-7,0.009445552,0.0019286922,0.000026372578,0.000042896278,0.020677928,0.35423592,0.0007304509,0.0012872084,0.6113946],"study_design_scores_gemma":[0.00016659359,0.00009261745,6.18974e-8,0.0007061956,0.0003685808,0.00009206575,0.000003800701,0.00014749696,0.00040306203,0.0000036801137,0.99747944,0.00053637795],"about_ca_topic_score_codex":0.00023541467,"about_ca_topic_score_gemma":0.000008431926,"teacher_disagreement_score":0.9961923,"about_ca_system_score_codex":0.000067162866,"about_ca_system_score_gemma":0.00025256004,"threshold_uncertainty_score":0.9997555},"labels":[],"label_agreement":null},{"id":"W2101231992","doi":"10.1038/msb.2011.18","title":"The multiple‐specificity landscape of modular peptide recognition domains","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Monoclonal and Polyclonal Antibodies Research","field":"Medicine","cited_by":90,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Ontario Genomics Institute; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; European Molecular Biology Organization; Heart and Stroke Foundation of Canada; Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; Ontario Genomics; Cystic Fibrosis Foundation; National Science Foundation","keywords":"Biology; Modular design; Computational biology; Peptide; Biochemistry; Computer science","score_opus":0.050398126509693116,"score_gpt":0.28228253320928137,"score_spread":0.23188440669958826,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2101231992","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9790138,0.0025853843,0.0016282928,0.00016819648,0.00025586277,0.000438354,0.000044715336,0.00002502829,0.01584038],"genre_scores_gemma":[0.9985694,0.0002366389,0.0003094052,0.000056045774,0.00010991775,0.000038835355,0.000072308045,0.000013877876,0.00059355213],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99875045,0.00024141994,0.0003313019,0.00021888496,0.00016372211,0.00029423332],"domain_scores_gemma":[0.9991786,0.00011640466,0.00010515228,0.00031068904,0.00019154206,0.00009762149],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003924931,0.00012335162,0.00029110964,0.000074603304,0.00009831059,0.000006675701,0.00014629263,0.00012952153,0.000052473137],"category_scores_gemma":[0.00013574096,0.00007338297,0.00013718211,0.00011978147,0.0002167584,0.000014461465,0.00006387871,0.00016543626,0.00008418957],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0019584042,0.00034766181,0.15870273,0.0003832194,0.0006737634,0.0003581727,0.0005254016,0.0000055763376,0.8096159,0.015384749,0.0011624454,0.01088194],"study_design_scores_gemma":[0.008010624,0.00622546,0.29764006,0.00075878284,0.00039015553,0.0019288277,0.0023584804,0.008741893,0.45488197,0.006510877,0.2112447,0.0013081785],"about_ca_topic_score_codex":0.0008140378,"about_ca_topic_score_gemma":0.000036529225,"teacher_disagreement_score":0.35473397,"about_ca_system_score_codex":0.00001591364,"about_ca_system_score_gemma":0.0000409189,"threshold_uncertainty_score":0.29924706},"labels":[],"label_agreement":null},{"id":"W2101991263","doi":"10.1038/msb.2011.43","title":"Phosphorylation network rewiring by gene duplication","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":36,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Institute for Research in Immunology and Cancer; Université Laval; Université de Montréal; PROTEO","funders":"Canadian Institutes of Health Research","keywords":"Biology; Gene duplication; Computational biology; Gene regulatory network; Gene; Genetics; Phosphorylation; Evolutionary biology; Gene expression","score_opus":0.013857305212257838,"score_gpt":0.24178507419479853,"score_spread":0.2279277689825407,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2101991263","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.1406329,0.002165724,0.84336233,0.000031441414,0.00006405239,0.00024634553,0.000021742211,0.0002505316,0.013224955],"genre_scores_gemma":[0.98106176,0.00006438344,0.017770594,0.00004873774,0.00007932303,0.00045627158,0.00020061866,0.00002501803,0.00029328145],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9992028,0.000019426523,0.00024125245,0.00028863605,0.00003919848,0.00020871419],"domain_scores_gemma":[0.9993301,0.000009397428,0.0001590263,0.0004103529,0.00004578354,0.00004535866],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009563064,0.00011364282,0.00013468428,0.000015261565,0.00007936616,0.000008656735,0.00017083257,0.00018797506,0.00005174427],"category_scores_gemma":[0.000009035281,0.0001168117,0.00004022832,0.00008567763,0.000035725967,0.000025383299,0.0000454016,0.000100516736,0.000028042423],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000006631196,0.000016218237,0.0013037432,0.000013722788,0.000015329062,9.567941e-7,0.000020106892,0.0000550912,0.9743162,0.022496725,0.000383446,0.001371828],"study_design_scores_gemma":[0.00010889567,0.000017183063,0.000031826057,0.000016503896,0.0000112019925,0.00001314896,0.00000850698,0.0010248142,0.96524155,0.005170187,0.028176604,0.00017956502],"about_ca_topic_score_codex":0.00013431296,"about_ca_topic_score_gemma":7.984489e-7,"teacher_disagreement_score":0.8404289,"about_ca_system_score_codex":0.000046303805,"about_ca_system_score_gemma":0.000009108963,"threshold_uncertainty_score":0.4763443},"labels":[],"label_agreement":null},{"id":"W2102464076","doi":"10.1038/msb4100045","title":"Systems‐level analyses identify extensive coupling among gene expression machines","year":2006,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Viral Infectious Diseases and Gene Expression in Insects","field":"Biochemistry, Genetics and Molecular Biology","cited_by":44,"is_retracted":false,"has_abstract":false,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"","keywords":"Library science; Research center; Medicine; Computer science; Pathology","score_opus":0.024146805744195324,"score_gpt":0.3190147926684779,"score_spread":0.29486798692428257,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2102464076","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.92285925,0.017205268,0.05704135,0.000012389084,0.0016321774,0.00047973782,0.00014645966,0.00007096004,0.0005523852],"genre_scores_gemma":[0.9968876,0.00007296102,0.00017693553,0.000078755984,0.00086313655,0.00019318656,0.0008660446,0.000064806685,0.0007965248],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9975098,0.000283128,0.0006294658,0.0008547562,0.00020029893,0.00052255456],"domain_scores_gemma":[0.9983906,0.000021432756,0.00036665873,0.0007453754,0.00032326096,0.00015264897],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00022760985,0.00041197523,0.00046473948,0.00016166356,0.00025968355,0.00012645745,0.00032648523,0.00048147925,0.000013525913],"category_scores_gemma":[0.0000905559,0.00034878275,0.00027982713,0.00017498218,0.00015749794,0.000009970449,0.0002372363,0.00014419622,0.000028479357],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000043930508,0.00006804424,0.020687534,0.00007023867,0.00009812497,0.000050856543,0.0000050900067,0.02546821,0.94978815,0.00017082151,0.0035212678,0.000027707652],"study_design_scores_gemma":[0.0009781662,0.0003283935,0.009087805,0.00013464343,0.0001168756,0.00014470861,0.00008350968,0.005071499,0.9794762,0.00013951106,0.0036386293,0.00080006704],"about_ca_topic_score_codex":0.002198266,"about_ca_topic_score_gemma":0.000034770343,"teacher_disagreement_score":0.07402838,"about_ca_system_score_codex":0.00003227661,"about_ca_system_score_gemma":0.00005716167,"threshold_uncertainty_score":0.9998964},"labels":[],"label_agreement":null},{"id":"W2104413400","doi":"10.1038/msb.2011.34","title":"Economics of membrane occupancy and respiro‐fermentation","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":214,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"Ontario Ministry of Research and Innovation; Natural Sciences and Engineering Research Council of Canada; Office of Science; Genome Canada; University of Toronto; U.S. Department of Energy","keywords":"Biology; Fermentation; Biochemistry; Oxidative phosphorylation; Cellular respiration; Bacteria; Respiratory chain; Cell biology; Biophysics; Mitochondrion; Genetics","score_opus":0.01232334387867591,"score_gpt":0.2127733056237023,"score_spread":0.20044996174502638,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2104413400","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9925645,0.0020722072,0.004332031,0.000010244939,0.00042047192,0.0001435639,0.000014816597,0.000008949057,0.00043321002],"genre_scores_gemma":[0.9987545,0.0003011604,0.000655792,0.000027128808,0.000096706404,0.000011586217,0.000051766736,0.000011785244,0.0000895466],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9993548,0.000059903403,0.00020850252,0.00024128055,0.000016631986,0.000118898635],"domain_scores_gemma":[0.9996231,8.728174e-7,0.00008944871,0.00021437845,0.000038979706,0.000033223096],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001454954,0.00009865752,0.0001529598,0.000050968036,0.000017111044,0.0000034809473,0.000069935406,0.00013396807,0.0000035326264],"category_scores_gemma":[0.000024633135,0.00009297087,0.000035798614,0.000038202732,0.0000605803,0.000001959755,0.00003766547,0.000032092335,0.0000020222456],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000036699243,0.000015806354,0.0012580185,0.000038392503,0.000042665386,5.064017e-7,0.00003787863,0.000014690451,0.996,0.0015945355,0.000019492792,0.0009413423],"study_design_scores_gemma":[0.00026944687,0.00022835527,0.0021031934,0.00000893549,0.00001796735,0.000040359668,0.000027611524,0.000028773436,0.9915324,0.000043294272,0.0055798865,0.00011977079],"about_ca_topic_score_codex":0.00009972217,"about_ca_topic_score_gemma":0.0000032232547,"teacher_disagreement_score":0.0061900225,"about_ca_system_score_codex":0.000004075871,"about_ca_system_score_gemma":0.000014063765,"threshold_uncertainty_score":0.3791242},"labels":[],"label_agreement":null},{"id":"W2105247266","doi":"10.1038/msb4100159","title":"Ubiquitination screen using protein microarrays for comprehensive identification of Rsp5 substrates in yeast","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":157,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Hospital for Sick Children; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Hospital for Sick Children","keywords":"Biology; Identification (biology); Yeast; Computational biology; DNA microarray; Saccharomyces cerevisiae; Protein microarray; Proteomics; Protein Array Analysis; Genetics; Bioinformatics; Gene; Gene expression; Ecology","score_opus":0.03094897998256246,"score_gpt":0.29920826744056006,"score_spread":0.2682592874579976,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2105247266","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8757051,0.0013030482,0.12146565,0.000014972904,0.00012191866,0.0011536927,0.00010087427,0.000011507046,0.0001231933],"genre_scores_gemma":[0.99799234,0.0000058980477,0.0013236344,0.000027318383,0.000099227036,0.00007829484,0.00041460124,0.00002383655,0.00003482394],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99857104,0.0001506839,0.00055790466,0.00035543577,0.00007148344,0.00029344606],"domain_scores_gemma":[0.99910384,0.000014573624,0.00030864423,0.00025808808,0.00027034982,0.00004451329],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006650088,0.0001546786,0.0002354151,0.00014413946,0.0000414802,0.0000137187535,0.00016691502,0.00027726887,0.0000012820786],"category_scores_gemma":[0.00007974212,0.00016266042,0.00008584074,0.00013447495,0.00009583832,0.0000041975322,0.000043210195,0.00006324964,0.000002064902],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0001068754,0.00004067703,0.001047095,0.00012631521,0.000029921252,0.0000025453223,0.00003829098,0.00011310352,0.9958908,0.0021539947,0.000008615181,0.00044177304],"study_design_scores_gemma":[0.0005904855,0.00022011278,0.0011297562,0.000052076033,0.000009723471,0.000017304881,0.00017230646,0.0005802184,0.99603546,0.00011402322,0.0009116271,0.00016690898],"about_ca_topic_score_codex":0.00016980161,"about_ca_topic_score_gemma":0.00004685209,"teacher_disagreement_score":0.12228722,"about_ca_system_score_codex":0.00002774617,"about_ca_system_score_gemma":0.000056932102,"threshold_uncertainty_score":0.66330993},"labels":[],"label_agreement":null},{"id":"W2105372361","doi":"10.1038/msb.2009.49","title":"Cell–cell interaction networks regulate blood stem and progenitor cell fate","year":2009,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Hematopoietic Stem Cell Transplantation","field":"Medicine","cited_by":125,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Occupational Cancer Research Centre; Heart and Stroke Foundation; University Health Network; Aptose Biosciences (Canada); University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Stem Cell Network; John Simon Guggenheim Memorial Foundation","keywords":"Biology; Cell biology; Cell fate determination; Progenitor cell; Stem cell; Cell; In silico; Intracellular; Multicellular organism; Haematopoiesis; Cell type; Cellular differentiation; Cell signaling; Blood cell; Signal transduction; Immunology; Transcription factor; Genetics","score_opus":0.008634923532160018,"score_gpt":0.2377507861391323,"score_spread":0.22911586260697228,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2105372361","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9682374,0.0051201545,0.020907976,0.00012568003,0.0006276633,0.0010330989,0.0000057462903,0.00010802339,0.0038342855],"genre_scores_gemma":[0.99829614,0.00012647308,0.00032917102,0.00015838855,0.00015808413,0.000028590452,0.000075775155,0.000030553485,0.00079679827],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99835366,0.0002417709,0.00047195322,0.00045327423,0.00012212909,0.000357242],"domain_scores_gemma":[0.99918646,0.00004328328,0.00019201616,0.00032992387,0.00008360877,0.00016471505],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00022671097,0.00024598214,0.00043702926,0.00012254856,0.00005275412,0.00003047234,0.00007825708,0.00032937535,0.000008489832],"category_scores_gemma":[0.000003430181,0.00021577594,0.00008734422,0.00013632147,0.000041649622,0.00003834393,0.000014990108,0.00021446378,0.000039677183],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00014733867,0.00020567304,0.0039941827,0.0006496425,0.000060475064,0.00035279515,0.000257525,0.0001935607,0.9930425,0.0001764101,0.00012745247,0.0007924038],"study_design_scores_gemma":[0.00543963,0.0021951,0.0019455643,0.00047701437,0.0007547229,0.0019411197,0.00039088857,0.008710588,0.97484875,0.000032477245,0.0026792448,0.00058493094],"about_ca_topic_score_codex":0.00004160328,"about_ca_topic_score_gemma":0.0000010102876,"teacher_disagreement_score":0.030058794,"about_ca_system_score_codex":0.00003521007,"about_ca_system_score_gemma":0.000032436612,"threshold_uncertainty_score":0.8799088},"labels":[],"label_agreement":null},{"id":"W2105597591","doi":"10.1038/msb.2013.12","title":"Construction of human activity‐based phosphorylation networks","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Advanced Biosensing Techniques and Applications","field":"Biochemistry, Genetics and Molecular Biology","cited_by":162,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University of Toronto; Mount Sinai Hospital","funders":"National Institute of Diabetes and Digestive and Kidney Diseases; National Center for Research Resources; National Institute of General Medical Sciences; Wellcome Trust; National Eye Institute; National Human Genome Research Institute; Canadian Institutes of Health Research; National Cancer Institute; National Institutes of Health","keywords":"Phosphorylation; Biology; Kinase; Substrate-level phosphorylation; Cell biology; Signal transduction; Protein-Serine-Threonine Kinases; Protein phosphorylation; Receptor tyrosine kinase; Computational biology; Biochemistry; Protein kinase A","score_opus":0.0074548441004598995,"score_gpt":0.2609211848305033,"score_spread":0.2534663407300434,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2105597591","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.54662913,0.00019831948,0.4524076,0.000046861267,0.00007262656,0.00031199594,0.000005034874,0.000025446621,0.00030298237],"genre_scores_gemma":[0.9954109,0.0000117604,0.004150138,0.000054463195,0.00006546255,0.00009219056,0.00015817572,0.00001682736,0.00004008419],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9992394,0.000082327344,0.00020711843,0.00026574987,0.00004423317,0.00016119775],"domain_scores_gemma":[0.999269,0.000006395758,0.0001873973,0.00036140656,0.00013603365,0.00003974369],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000076286306,0.000121427474,0.00015941355,0.00004178815,0.00006146813,0.000010270335,0.0001032887,0.0002360682,0.0000061020432],"category_scores_gemma":[0.000014261629,0.00011635757,0.00007025392,0.00009214202,0.00014793618,0.0000026839548,0.0000404926,0.0000644515,0.0000033391282],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000065662794,0.000023961946,0.000905656,0.000009320555,0.00001706463,2.4160389e-7,0.0000011329676,0.0004793111,0.9920058,0.0034736237,0.000137201,0.0029400697],"study_design_scores_gemma":[0.0002436179,0.00028664968,0.00084811915,0.000016673815,0.000012211398,0.000011485267,0.000010669378,0.005996235,0.98949915,0.00047898828,0.0024162265,0.00017994676],"about_ca_topic_score_codex":0.00017633563,"about_ca_topic_score_gemma":0.000003851489,"teacher_disagreement_score":0.44878176,"about_ca_system_score_codex":0.000012209438,"about_ca_system_score_gemma":0.00001866465,"threshold_uncertainty_score":0.47449243},"labels":[],"label_agreement":null},{"id":"W2107272621","doi":"10.1038/msb.2010.39","title":"Proteome‐wide identification of mycobacterial pupylation targets","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Biochemical and Molecular Research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":102,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Occupational Cancer Research Centre; University of Toronto","funders":"Bundesministerium für Bildung und Forschung; Deutscher Akademischer Austauschdienst; Canadian Institutes of Health Research; European Commission","keywords":"Biology; Proteome; Mycobacterium smegmatis; Gene; Proteomics; Proteasome; Genome; Genetics; Metabolic pathway; Biochemistry; Computational biology; Cell biology; Mycobacterium tuberculosis","score_opus":0.00562593066726485,"score_gpt":0.25893401743744243,"score_spread":0.2533080867701776,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2107272621","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9735307,0.0004731999,0.023928978,0.00012035025,0.0008032815,0.00060986564,0.000042963016,0.00001812735,0.00047250287],"genre_scores_gemma":[0.99851173,0.00001806044,0.0002607032,0.000049799633,0.0002494945,0.00012506162,0.0005656371,0.000027911614,0.00019158516],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9984112,0.0001784625,0.00047454477,0.0004691981,0.00015610899,0.00031052783],"domain_scores_gemma":[0.99882954,0.000010904116,0.0002194715,0.0005843009,0.00025189418,0.000103898274],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00045219943,0.00017633951,0.00022326784,0.00008837371,0.000051521187,0.000026348036,0.000323556,0.0004675251,0.00001535488],"category_scores_gemma":[0.00040773524,0.00016252453,0.00012555734,0.00013046918,0.00019384843,0.000004021132,0.00014903134,0.00019229681,0.000021307475],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00007293502,0.000054278426,0.0015341779,0.00005119853,0.00005265832,0.0000028383113,0.000008569101,0.000007180418,0.9959639,0.001539475,0.00016916537,0.0005436655],"study_design_scores_gemma":[0.00037610708,0.00017664151,0.0013430084,0.0000067726437,0.000011395006,0.000020534711,0.000006553802,0.000077853954,0.9803129,0.00013763536,0.017357776,0.00017281361],"about_ca_topic_score_codex":0.000059704806,"about_ca_topic_score_gemma":0.000009271945,"teacher_disagreement_score":0.024981016,"about_ca_system_score_codex":0.000008160204,"about_ca_system_score_gemma":0.0000777328,"threshold_uncertainty_score":0.6627558},"labels":[],"label_agreement":null},{"id":"W2110311701","doi":"10.1038/msb.2013.9","title":"SH3 interactome conserves general function over specific form","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":71,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; National Human Genome Research Institute; Canadian Institutes of Health Research; National Institutes of Health; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung","keywords":"Interactome; Biology; SH3 domain; Saccharomyces cerevisiae; Yeast; Budding yeast; Caenorhabditis elegans; Function (biology); Computational biology; Conserved sequence; Homology (biology); Genetics; Cell biology; Proto-oncogene tyrosine-protein kinase Src; Gene; Peptide sequence; Signal transduction","score_opus":0.006462781367368991,"score_gpt":0.21442202655124767,"score_spread":0.20795924518387868,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2110311701","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9147279,0.003604229,0.07447661,0.00010790094,0.0016503495,0.0005657067,0.000022319804,0.000031704334,0.004813259],"genre_scores_gemma":[0.9967535,0.000088677494,0.00028821698,0.00073937164,0.00051472377,0.0001069669,0.00042117015,0.00003139351,0.0010559802],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99861914,0.00009422623,0.00043459237,0.00036084195,0.000075912074,0.0004153076],"domain_scores_gemma":[0.9991103,0.00000942836,0.00016478825,0.0004945855,0.00010396163,0.00011696215],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00016387868,0.0002450264,0.00025452368,0.00007088774,0.00007297926,0.000088396024,0.00023594766,0.0003655909,0.00012417832],"category_scores_gemma":[0.000011709242,0.00021105586,0.00014414584,0.0000780006,0.00009768318,0.000009369256,0.00015427916,0.00013530065,0.00022352986],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00005219725,0.000037510716,0.0016956255,0.00003732719,0.00019511166,0.0000051594784,0.00003690213,0.00012642649,0.96182036,0.008024028,0.023738177,0.0042311954],"study_design_scores_gemma":[0.0028769884,0.0019466516,0.011212098,0.00007869237,0.00007162616,0.00036090566,0.00026643966,0.01127567,0.03575249,0.0046800044,0.9297678,0.0017106587],"about_ca_topic_score_codex":0.00017793768,"about_ca_topic_score_gemma":0.000012793803,"teacher_disagreement_score":0.9260678,"about_ca_system_score_codex":0.00002432368,"about_ca_system_score_gemma":0.000031202286,"threshold_uncertainty_score":0.8606608},"labels":[],"label_agreement":null},{"id":"W2111354165","doi":"10.15252/msb.20145379","title":"Emergence of robust growth laws from optimal regulation of ribosome synthesis","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":493,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Waterloo","funders":"National Institute of General Medical Sciences; Center for Theoretical Biological Physics; National Institutes of Health","keywords":"Biology; Ribosome; Synthetic biology; Protein biosynthesis; Ribosomal protein; Computational biology; Biochemical engineering; Cell biology; Genetics; RNA; Gene","score_opus":0.00942719039213346,"score_gpt":0.21207575159781536,"score_spread":0.2026485612056819,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2111354165","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.7189287,0.0012949422,0.27804774,0.00004156832,0.00032103382,0.00023757109,0.00007351916,0.000011552843,0.0010433733],"genre_scores_gemma":[0.9950738,0.000058315512,0.004482208,0.000022194543,0.0001305672,0.000056141973,0.0000980925,0.00002647787,0.000052223215],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9982365,0.0005097814,0.0004995913,0.00041099757,0.00012410729,0.00021903092],"domain_scores_gemma":[0.9988062,0.000053963573,0.0003649484,0.0005437289,0.00017132181,0.000059840004],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00042341676,0.000188888,0.0004139768,0.00006972855,0.000033680673,0.000005708966,0.00031866346,0.00034381397,0.00007125963],"category_scores_gemma":[0.00035048567,0.00017445348,0.0001524517,0.0000958886,0.00011633845,0.0000034893926,0.00009498029,0.000044906526,0.000007903984],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00005801968,0.000032146116,0.0007919438,0.00005565382,0.00010273519,6.096507e-7,0.000015109776,0.00044529003,0.9923752,0.0050699003,0.00011531727,0.0009380942],"study_design_scores_gemma":[0.00017711619,0.00027091158,0.00047253794,0.000052928142,0.000040643114,0.000004697496,0.00003639099,0.00093058817,0.9965792,0.0004379248,0.0008160638,0.00018102286],"about_ca_topic_score_codex":0.00035686203,"about_ca_topic_score_gemma":0.0000068394043,"teacher_disagreement_score":0.27614507,"about_ca_system_score_codex":0.0000040556833,"about_ca_system_score_gemma":0.000028225137,"threshold_uncertainty_score":0.7114006},"labels":[],"label_agreement":null},{"id":"W2116298046","doi":"10.1038/msb4100200","title":"A map of human cancer signaling","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":269,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McGill University; National Research Council Canada; Biotechnology Research Institute","funders":"National Cancer Institute","keywords":"Library science; China; Zhàng; Research council; Editorial board; Political science; Law; Computer science; Government (linguistics)","score_opus":0.009292567902469975,"score_gpt":0.27039306119387113,"score_spread":0.26110049329140117,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2116298046","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.86819625,0.0068045994,0.121939704,0.00004096698,0.0005912432,0.00026032512,0.000025364092,0.000012465989,0.002129064],"genre_scores_gemma":[0.9988654,0.0000143608495,0.00032075305,0.00014047038,0.00025160462,0.000015241634,0.00010305648,0.00001896934,0.00027013567],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9989117,0.000049990704,0.0004397335,0.00021687757,0.00006553506,0.00031616067],"domain_scores_gemma":[0.9993148,0.000007660971,0.00020557945,0.000308941,0.00009124893,0.00007176148],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00048938225,0.00014488786,0.00022707201,0.00006083984,0.00004975847,0.000008739521,0.0002029514,0.00027772455,0.000017797103],"category_scores_gemma":[0.000007282126,0.00013281005,0.000101594414,0.00004934628,0.00009541423,0.0000012542245,0.00009056061,0.00008112214,0.000009004548],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000021713135,0.000016978302,0.0013290662,0.00005762432,0.000095076524,0.0000039270285,0.000037616916,0.00019603422,0.991436,0.0050451355,0.00042981276,0.0013310119],"study_design_scores_gemma":[0.0010273848,0.00071665895,0.00033435773,0.00007972297,0.00005321382,0.00003428281,0.0002527539,0.00035401995,0.93822616,0.0008907156,0.05749125,0.0005394538],"about_ca_topic_score_codex":0.00016808156,"about_ca_topic_score_gemma":0.00003930521,"teacher_disagreement_score":0.13066915,"about_ca_system_score_codex":0.000013532429,"about_ca_system_score_gemma":0.000034637967,"threshold_uncertainty_score":0.54158366},"labels":[],"label_agreement":null},{"id":"W2116536284","doi":"10.1038/msb.2011.31","title":"Cross‐species discovery of syncretic drug combinations that potentiate the antifungal fluconazole","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":185,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McMaster University; Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Fluconazole; Biology; Antifungal; Antifungal drug; Drug; Drug discovery; Computational biology; Antifungal drugs; Pharmacology; Microbiology; Bioinformatics","score_opus":0.030672177066206924,"score_gpt":0.2708982046889418,"score_spread":0.2402260276227349,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2116536284","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98136264,0.002888017,0.0064866813,0.000148756,0.00045959224,0.00046094702,0.00005067304,0.000031341082,0.008111366],"genre_scores_gemma":[0.994242,0.000053885004,0.000035272074,0.00009089693,0.000029675783,0.00002304042,0.000037391783,0.000015635707,0.0054721846],"study_design_codex":"observational","study_design_gemma":"observational","domain_scores_codex":[0.9986652,0.00023329069,0.00037090655,0.00028962345,0.00017244987,0.0002685411],"domain_scores_gemma":[0.9989392,0.00006342943,0.00016781903,0.0006045278,0.0001726069,0.00005237551],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00039383516,0.00015584815,0.0004001607,0.00006686229,0.00011378687,0.00003330509,0.00020978074,0.00011628106,0.000047231075],"category_scores_gemma":[0.00011519965,0.00009803048,0.00020121883,0.00013607494,0.00062178075,0.0000816569,0.00007806772,0.0001610685,0.000019998717],"study_design_candidate":"observational","study_design_consensus":"observational","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00017746909,0.00023637562,0.6074465,0.00026977985,0.00023687436,0.00006937005,0.0004406708,0.0000020539828,0.315693,0.0751369,0.00019785446,0.00009314494],"study_design_scores_gemma":[0.0011714975,0.00026161864,0.8563471,0.00015967026,0.00017893405,0.00007307906,0.0011935396,0.00013437353,0.13844965,0.0007440739,0.0010691393,0.0002173393],"about_ca_topic_score_codex":0.00032713893,"about_ca_topic_score_gemma":0.000025988236,"teacher_disagreement_score":0.24890056,"about_ca_system_score_codex":0.000030261628,"about_ca_system_score_gemma":0.00007055586,"threshold_uncertainty_score":0.3997567},"labels":[],"label_agreement":null},{"id":"W2117709824","doi":"10.1038/msb4100048","title":"The interactome of human EGF/ErbB receptors","year":2006,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Monoclonal and Polyclonal Antibodies Research","field":"Medicine","cited_by":14,"is_retracted":false,"has_abstract":false,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"","keywords":"Biology; Interactome; ErbB; Receptor; Computational biology; Cell biology; Genetics; Gene","score_opus":0.013489500088216198,"score_gpt":0.32577295866535916,"score_spread":0.31228345857714296,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2117709824","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.97318697,0.0046368507,0.00019940744,0.000985763,0.0004276989,0.00030456178,0.000009368199,0.000021749067,0.020227619],"genre_scores_gemma":[0.99209297,0.00004091493,0.000025034813,0.000048889193,0.00019613636,0.0000146105,0.00006467451,0.000012562267,0.007504196],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9988639,0.0001811749,0.00035395855,0.00017411387,0.00015404516,0.0002728045],"domain_scores_gemma":[0.9993763,0.00008774501,0.00009654944,0.00026218526,0.00012143638,0.000055811888],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002527725,0.00010989832,0.00028131623,0.000077238736,0.000096540665,0.0000108707845,0.0001564705,0.00010293753,0.00003982575],"category_scores_gemma":[0.00003768017,0.000062971485,0.00012331616,0.00012142262,0.00029008443,0.000009838594,0.000052908723,0.00016017126,0.00005087008],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00012671751,0.0001083231,0.02108014,0.00010454558,0.00011686358,0.000055746117,0.000046032972,0.0000029731411,0.8904568,0.08098438,0.0048222314,0.002095265],"study_design_scores_gemma":[0.0021302444,0.0031931729,0.037887234,0.00062557677,0.00010818676,0.0006101967,0.00039691787,0.00038256418,0.24044876,0.0037442876,0.7099568,0.0005160201],"about_ca_topic_score_codex":0.0014495318,"about_ca_topic_score_gemma":0.000025462463,"teacher_disagreement_score":0.70513463,"about_ca_system_score_codex":0.000032353644,"about_ca_system_score_gemma":0.000035759716,"threshold_uncertainty_score":0.25679025},"labels":[],"label_agreement":null},{"id":"W2120187999","doi":"10.1038/msb.2010.11","title":"Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":172,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"University of Toronto; Eidgenössische Technische Hochschule Zürich; Austrian Science Fund","keywords":"Metabolite; Enzyme; Biology; Biochemistry; Metabolic pathway; Enzyme kinetics; Metabolomics; Saccharomyces cerevisiae; Metabolome; Enzyme assay; Bioinformatics; Active site; Yeast","score_opus":0.009101535682525662,"score_gpt":0.22661444606941256,"score_spread":0.2175129103868869,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2120187999","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9770173,0.009473098,0.011768294,0.00020589495,0.0008875059,0.00038911574,0.00012641029,0.000038430677,0.000093951014],"genre_scores_gemma":[0.9980309,0.00029750867,0.0006211023,0.00006219334,0.00059965055,0.000057300804,0.00021782145,0.000033693625,0.00007985122],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9980759,0.00024997193,0.00042846202,0.00067539635,0.00009287768,0.00047737188],"domain_scores_gemma":[0.9991455,0.000011912627,0.00011309968,0.0005120623,0.00007717968,0.00014021921],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0006230592,0.00030064845,0.00045835445,0.00024182544,0.00008873483,0.00003925107,0.00022543984,0.00045348195,0.000005229778],"category_scores_gemma":[0.00023737206,0.0002741884,0.000106966676,0.00029741574,0.00014545045,0.000007672539,0.000086285414,0.00033758904,0.000006575014],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000009070126,0.000040240546,0.002026889,0.00002637782,0.00006424226,0.000002440932,0.00007281909,0.00010100429,0.99112254,0.00486449,0.000025637057,0.0016442176],"study_design_scores_gemma":[0.00079701166,0.00016371679,0.015820615,0.000014114388,0.00009445888,0.00014541819,0.000058189642,0.000273128,0.8352156,0.00008887488,0.14675741,0.00057142024],"about_ca_topic_score_codex":0.00040348092,"about_ca_topic_score_gemma":0.00009066075,"teacher_disagreement_score":0.15590692,"about_ca_system_score_codex":0.0000110499295,"about_ca_system_score_gemma":0.000046663827,"threshold_uncertainty_score":0.99997103},"labels":[],"label_agreement":null},{"id":"W2120681729","doi":"10.1038/msb.2013.21","title":"Nucleotide degradation and ribose salvage in yeast","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":77,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"Division of Chemical, Bioengineering, Environmental, and Transport Systems; Ontario Genomics Institute; Air Force Office of Scientific Research; Ontario Genomics; Genome Canada; Princeton University; U.S. Department of Energy; National Cancer Institute; National Institutes of Health; Government of Canada; National Science Foundation","keywords":"Transaldolase; Ribose; Biology; Biochemistry; Pentose phosphate pathway; Nucleotide salvage; Nucleotide; Purine nucleoside phosphorylase; Glyceraldehyde; Hyperthermophile; Purine; Dehydrogenase; Glycolysis; Metabolism; Enzyme; Gene","score_opus":0.008117839632453707,"score_gpt":0.24659079482396237,"score_spread":0.23847295519150866,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2120681729","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99288666,0.0027598925,0.0022480492,0.00015611966,0.00013414193,0.00039193695,0.000012703775,0.000009321973,0.0014011926],"genre_scores_gemma":[0.9987291,0.00011729128,0.00020345551,0.00011236869,0.00007164317,0.00009350881,0.00010885451,0.000019872843,0.00054387073],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99884886,0.00019798243,0.00020846528,0.00036402888,0.000075450844,0.0003052356],"domain_scores_gemma":[0.9995206,0.0000072668686,0.000043268497,0.00026394307,0.00006849898,0.00009641576],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00017464078,0.00013623647,0.00015443747,0.000089454414,0.00003369348,0.00003914581,0.00014499763,0.00018814964,0.000017238257],"category_scores_gemma":[0.000064627005,0.00012241493,0.000034907756,0.00009684745,0.00009295638,0.0000034267478,0.00014433918,0.0000966239,0.00007606223],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000010953018,0.00002278179,0.013540687,0.000022319558,0.00001715558,0.000006701653,0.000011984799,0.00002827041,0.98322695,0.0005336994,0.00030610905,0.0022724022],"study_design_scores_gemma":[0.0028010844,0.0013276687,0.08786134,0.00009853693,0.000021762711,0.00019842744,0.0003652843,0.0042887204,0.8494697,0.0008993318,0.051519673,0.0011484309],"about_ca_topic_score_codex":0.00053300447,"about_ca_topic_score_gemma":0.000056302786,"teacher_disagreement_score":0.13375719,"about_ca_system_score_codex":0.00001226411,"about_ca_system_score_gemma":0.000030269002,"threshold_uncertainty_score":0.4991936},"labels":[],"label_agreement":null},{"id":"W2120718521","doi":"10.1038/msb.2010.79","title":"Intra‐ and inter‐chromosomal interactions correlate with CTCF binding genome wide","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":105,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Ontario Institute for Cancer Research","funders":"Agence Nationale de la Recherche; European Commission","keywords":"CTCF; Biology; Genome; Chromosome conformation capture; Chromatin; Genetics; Cohesin; Chromatin immunoprecipitation; Chromosome; Replication timing; Computational biology; ChIA-PET; DNA; Gene; Transcription factor; Chromatin remodeling; Gene expression","score_opus":0.0033916872468856035,"score_gpt":0.2069478093516803,"score_spread":0.2035561221047947,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2120718521","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98099023,0.00030971156,0.016517906,0.00010287914,0.0007832697,0.00025848037,0.000041499767,0.00002351585,0.00097251934],"genre_scores_gemma":[0.99809915,0.00003614254,0.00090450374,0.00011667065,0.00014112341,0.00004457641,0.00028032737,0.000042855932,0.0003346779],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99879634,0.00007831621,0.00027575993,0.00047383938,0.000051322528,0.000324398],"domain_scores_gemma":[0.9992157,0.000016536947,0.00014898618,0.0004201818,0.00007578232,0.00012280828],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00014496833,0.00023557496,0.00023645021,0.0000848213,0.000108612854,0.00006104722,0.00021111107,0.00024983106,0.000014472421],"category_scores_gemma":[0.000042625263,0.00020321281,0.000058599493,0.00007461087,0.0001851614,0.0000046353784,0.00017584082,0.00028041122,0.00001985234],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00003055318,0.000025262483,0.007310437,0.000022162729,0.0001268923,0.000023288065,0.000042780266,0.00006528676,0.99110556,0.00087249716,0.000038953,0.00033633783],"study_design_scores_gemma":[0.0106541235,0.008561939,0.044445995,0.00043595352,0.00071595446,0.016479755,0.0021171933,0.025005288,0.36184558,0.0008142457,0.5222646,0.0066593876],"about_ca_topic_score_codex":0.000055768185,"about_ca_topic_score_gemma":0.00017327027,"teacher_disagreement_score":0.62925994,"about_ca_system_score_codex":0.000015843383,"about_ca_system_score_gemma":0.00005112704,"threshold_uncertainty_score":0.8286778},"labels":[],"label_agreement":null},{"id":"W2121581360","doi":"10.15252/msb.20145949","title":"Growth‐dependent bacterial susceptibility to ribosome‐targeting antibiotics","year":2015,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":178,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Waterloo","funders":"Natural Sciences and Engineering Research Council of Canada; Engineering and Physical Sciences Research Council; Deutsche Forschungsgemeinschaft; Deutscher Akademischer Austauschdienst","keywords":"Biology; Antibiotics; Translation (biology); Ribosome; Escherichia coli; Pathogen; Drug development; Bacterial growth; Computational biology; Limiting; Microbiology; Drug; Genetics; Bacteria; Gene; RNA; Pharmacology; Messenger RNA","score_opus":0.014058606551856862,"score_gpt":0.2532710230125228,"score_spread":0.23921241646066593,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2121581360","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98723936,0.000036322246,0.006736709,0.00025803517,0.002480985,0.00035272996,0.00003913155,0.00005583459,0.002800903],"genre_scores_gemma":[0.9985268,0.0000020472055,0.00070811046,0.00021033298,0.00015805966,0.000003870886,0.00004949981,0.00001756363,0.00032370794],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9985464,0.00023572643,0.00031924775,0.0004369905,0.000097448545,0.0003641921],"domain_scores_gemma":[0.9993246,0.000015680767,0.00008766178,0.00029517422,0.000037111822,0.00023975888],"candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0003848215,0.00016441781,0.00022736083,0.00003702573,0.00006926368,0.000056484132,0.00024825474,0.0001430111,0.00034009808],"category_scores_gemma":[0.00014256105,0.00014832537,0.000064559856,0.00013859503,0.000082608756,0.0000799736,0.0003324931,0.000111386005,0.0015925796],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000021997097,0.00004727291,0.0051311976,0.000006278587,0.000012859608,0.000017020295,0.00012861333,0.000115923525,0.99214906,0.00012668064,0.0020802075,0.00016290398],"study_design_scores_gemma":[0.0018712598,0.001436696,0.025486086,0.00006924799,0.000079151265,0.00030938094,0.00080530765,0.00038555445,0.7589942,0.00028520243,0.20873259,0.001545311],"about_ca_topic_score_codex":0.0030539935,"about_ca_topic_score_gemma":0.00019173189,"teacher_disagreement_score":0.23315483,"about_ca_system_score_codex":0.00023543726,"about_ca_system_score_gemma":0.00001611431,"threshold_uncertainty_score":0.9991848},"labels":[],"label_agreement":null},{"id":"W2121806138","doi":"10.1038/msb4100187","title":"Programming gene expression with combinatorial promoters","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":381,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Calgary","funders":"Sandia National Laboratories; National Institute of General Medical Sciences; National Institutes of Health; Fondation pour la Recherche Médicale; Alberta Heritage Foundation for Medical Research; National Physical Science Consortium; California Institute of Technology","keywords":"Promoter; Biology; Computational biology; Synthetic biology; Gene; Genetics; Cis-regulatory module; Regulation of gene expression; Transcription factor; Gene expression","score_opus":0.004974958743792781,"score_gpt":0.22577532538790268,"score_spread":0.2208003666441099,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2121806138","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.81831956,0.0016551039,0.17876756,0.000019614235,0.0004925129,0.00042716975,0.000003088596,0.000037445363,0.00027796716],"genre_scores_gemma":[0.99651814,0.000009241159,0.002574437,0.000045588073,0.00043780264,0.00005064027,0.0002093189,0.000047828875,0.00010703505],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9981404,0.00018838141,0.00034020634,0.0006172637,0.0001636065,0.0005501322],"domain_scores_gemma":[0.9989023,0.0000082232855,0.00018386256,0.0006082735,0.00013613106,0.0001611611],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005834578,0.0002650437,0.00029638718,0.00009970136,0.00010299272,0.000029996987,0.00025999077,0.00034848097,0.0000030479257],"category_scores_gemma":[0.000025161042,0.00021476182,0.00012087883,0.0002082579,0.00013346825,0.0000026531059,0.000116129806,0.000104683924,0.0000080533855],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00013619606,0.000055961944,0.010402909,0.00002010416,0.000164878,0.0000504125,0.000016678065,0.00035138294,0.9870397,0.00022017905,0.00009447805,0.0014471405],"study_design_scores_gemma":[0.0010409295,0.00082783244,0.0003193515,0.00003077534,0.00006353407,0.00014619711,0.00007935688,0.00006798645,0.96484977,0.00002598998,0.032129783,0.00041847365],"about_ca_topic_score_codex":0.00004955323,"about_ca_topic_score_gemma":0.000017972794,"teacher_disagreement_score":0.17819858,"about_ca_system_score_codex":0.00003088063,"about_ca_system_score_gemma":0.000056506495,"threshold_uncertainty_score":0.87577325},"labels":[],"label_agreement":null},{"id":"W2122217863","doi":"10.15252/msb.20145760","title":"Efficient sample processing for proteomics applications—Are we there yet?","year":2014,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":9,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"","keywords":"Proteomics; Biology; Computational biology; Sample (material); Quantitative proteomics; Throughput; Scalability; Computer science; Chromatography; Genetics; Telecommunications; Database","score_opus":0.019894444548137005,"score_gpt":0.28723998253764943,"score_spread":0.26734553798951244,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2122217863","genre_codex":"methods","genre_gemma":"methods","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"methods","genre_consensus":"methods","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.00013426878,0.0023475687,0.94214904,0.050581068,0.000063717176,0.0030243734,0.0008052987,0.0003482019,0.0005464571],"genre_scores_gemma":[0.0700158,0.0003116581,0.4951333,0.17389901,0.011895836,0.2261591,0.016903196,0.0014827999,0.004199304],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99781036,0.00005192652,0.00057513337,0.0009073616,0.00012289667,0.0005323306],"domain_scores_gemma":[0.9976661,0.00014317126,0.00084008503,0.0010285061,0.00026606116,0.000056030916],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.0001558525,0.0004573063,0.0006291109,0.00008425308,0.00023021978,0.0000711293,0.00067443773,0.0015517033,0.000014245918],"category_scores_gemma":[0.00005170903,0.00042699047,0.00021187104,0.000118416734,0.00011998935,0.000008663315,0.000106195585,0.00082982663,0.00001625461],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000074986165,0.0002638124,0.00014342448,0.025487948,0.00045292094,0.00004220277,0.000108498214,0.0035526927,0.6147292,0.025117937,0.31455293,0.01547339],"study_design_scores_gemma":[0.00019883932,0.00002332272,5.9156637e-8,0.0003186533,0.00005336057,0.00002980201,0.000015429796,0.0052969866,0.021839267,0.00502364,0.96670526,0.00049539405],"about_ca_topic_score_codex":0.00003823254,"about_ca_topic_score_gemma":8.506961e-7,"teacher_disagreement_score":0.6521523,"about_ca_system_score_codex":0.00016455399,"about_ca_system_score_gemma":0.000089081215,"threshold_uncertainty_score":0.9998182},"labels":[],"label_agreement":null},{"id":"W2128036243","doi":"10.1038/msb4100134","title":"Large‐scale mapping of human protein–protein interactions by mass spectrometry","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1001,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto; PROTO Manufacturing (Canada); University of Ottawa; MaRS","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Biology; Mass spectrometry; Computational biology; Scale (ratio); Proteomics; Biochemistry; Chromatography; Gene; Cartography","score_opus":0.006306790476073409,"score_gpt":0.24105069372101712,"score_spread":0.2347439032449437,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2128036243","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.52863425,0.0010727933,0.46643993,0.0000298152,0.00017610473,0.0003962277,0.00004772634,0.000013446572,0.003189673],"genre_scores_gemma":[0.9963035,0.0000055922474,0.0018714007,0.00007739838,0.00018522894,0.00004081614,0.00035604814,0.000029369667,0.0011306726],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9983541,0.000097143646,0.0006214412,0.0003350211,0.00009651976,0.00049580773],"domain_scores_gemma":[0.9989936,0.000006801983,0.00031552833,0.00048552715,0.00009415167,0.00010439459],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006336127,0.00021737999,0.0003117326,0.00013412001,0.00009913813,0.000019430347,0.0002763994,0.00032063355,0.00002011422],"category_scores_gemma":[0.000021362472,0.00021170916,0.0001465258,0.00017528226,0.00009805679,0.000004157105,0.00012509065,0.0001905189,0.000013308763],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000020842692,0.00005346885,0.00034566713,0.000063936786,0.00010487368,0.0000035363594,0.000060972605,0.0000055632204,0.99615586,0.0024220634,0.0005645961,0.00019863936],"study_design_scores_gemma":[0.0007549665,0.0005186362,0.00010584364,0.00008521549,0.000017356824,0.000034889228,0.0006298592,0.00016809578,0.951158,0.00080697273,0.04531753,0.00040262024],"about_ca_topic_score_codex":0.000050063267,"about_ca_topic_score_gemma":0.000024838415,"teacher_disagreement_score":0.46766922,"about_ca_system_score_codex":0.00003162599,"about_ca_system_score_gemma":0.000027962664,"threshold_uncertainty_score":0.86332494},"labels":[],"label_agreement":null},{"id":"W2131573135","doi":"10.15252/msb.20156373","title":"Extensive mapping of an innate immune network with CRISPR","year":2015,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"","keywords":"Biology; CRISPR; Innate immune system; Computational biology; Immune system; Genetics; Gene","score_opus":0.010723198620582962,"score_gpt":0.28739126675987753,"score_spread":0.27666806813929457,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2131573135","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.74207205,0.008816377,0.2477772,0.0000271832,0.00040297912,0.0002561675,0.000008860642,0.00002101502,0.0006181906],"genre_scores_gemma":[0.9970871,0.00002710569,0.0023310168,0.00006891856,0.00021436087,0.000030459818,0.00012837925,0.000034184955,0.000078482044],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9987648,0.00014868114,0.0003092411,0.00035375459,0.000091543094,0.0003319806],"domain_scores_gemma":[0.99896187,0.000005726608,0.00012643078,0.0005189458,0.00025737364,0.00012966567],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003074362,0.00019396759,0.00031014837,0.00005677217,0.000028505801,0.000011382521,0.00020863395,0.00019895684,0.000001416476],"category_scores_gemma":[0.000047567195,0.0001661777,0.000058772588,0.00014539498,0.00008816961,0.0000027346637,0.000097559816,0.00008225969,0.0000037002221],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008589671,0.00002727479,0.0012027317,0.000040559695,0.00014174642,0.00003013053,0.000089180074,0.03396717,0.96314496,0.00048703502,0.00018550984,0.00059777783],"study_design_scores_gemma":[0.0029750527,0.0039954204,0.0027031917,0.00017824314,0.00008968727,0.0006414278,0.0011883993,0.0043359213,0.9247932,0.00021234552,0.057803992,0.0010831386],"about_ca_topic_score_codex":0.000120206576,"about_ca_topic_score_gemma":0.000011941647,"teacher_disagreement_score":0.25501508,"about_ca_system_score_codex":0.000010804023,"about_ca_system_score_gemma":0.00006823792,"threshold_uncertainty_score":0.677653},"labels":[],"label_agreement":null},{"id":"W2133812508","doi":"10.1038/msb4100151","title":"Integrated proteomic and transcriptomic profiling of mouse lung development and Nmyc target genes","year":2007,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genetic Syndromes and Imprinting","field":"Biochemistry, Genetics and Molecular Biology","cited_by":68,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Princess Margaret Cancer Centre; Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Ontario Genomics; Ontario Genomics Institute; Genome Canada","keywords":"Biology; Transcriptome; Gene; Gene expression profiling; Gene expression; Microarray analysis techniques; Microarray; Messenger RNA; DNA microarray; Molecular biology; Genetics; Cell biology","score_opus":0.007581777617385549,"score_gpt":0.22736491781211265,"score_spread":0.2197831401947271,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2133812508","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9236998,0.00808949,0.06750279,0.000010220172,0.00012521693,0.00047870993,0.000008545759,0.000010936604,0.00007429779],"genre_scores_gemma":[0.9845002,0.00007433446,0.015152177,0.000025694248,0.000029823332,0.000029734489,0.00007129523,0.00002425737,0.0000924719],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99874115,0.00008301432,0.00042113743,0.00039010885,0.000057919562,0.0003066469],"domain_scores_gemma":[0.99951774,0.0000063400653,0.00012739435,0.00018976736,0.0000760274,0.00008275534],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00046733522,0.00019105263,0.00026916544,0.00008581713,0.000052730888,0.000014279253,0.00010626887,0.0002258849,0.0000014642768],"category_scores_gemma":[0.000032060587,0.0001691681,0.00003930368,0.00006366952,0.00010541292,0.0000020550979,0.00008432131,0.00007187163,6.795221e-7],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000017698854,0.00001528064,0.031200217,0.00013935106,0.00008601791,0.000002695049,0.000068445785,0.000013742808,0.96582854,0.00015053459,0.0000039314536,0.00247356],"study_design_scores_gemma":[0.0004607581,0.00015682398,0.0030358292,0.000030116908,0.0000136725685,0.000102149985,0.00018665855,0.0003232585,0.9934553,0.0000067211035,0.002030728,0.00019799263],"about_ca_topic_score_codex":0.00006094072,"about_ca_topic_score_gemma":0.000007888965,"teacher_disagreement_score":0.060800415,"about_ca_system_score_codex":0.0000122705405,"about_ca_system_score_gemma":0.00006429233,"threshold_uncertainty_score":0.68984747},"labels":[],"label_agreement":null},{"id":"W2134874840","doi":"10.1038/msb.2009.37","title":"Comparative systems biology of human and mouse as a tool to guide the modeling of human placental pathology","year":2009,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Pregnancy and preeclampsia studies","field":"Medicine","cited_by":166,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University of Toronto; Ontario Institute for Cancer Research; Hospital for Sick Children","funders":"Canadian Institutes of Health Research; Ontario Genomics; Ontario Genomics Institute; Genome Canada","keywords":"Biology; Human Pathology; Systems biology; Computational biology; Human biology; Pathology; Bioinformatics; Disease; Genetics","score_opus":0.03714901456031537,"score_gpt":0.33708871427193005,"score_spread":0.29993969971161466,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2134874840","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9795403,0.012665132,0.002989011,0.00019100621,0.00015450366,0.0011030324,0.00003881448,0.000031594034,0.003286612],"genre_scores_gemma":[0.99936974,0.000044896424,0.00007688409,0.00019502045,0.00005462439,0.000067968525,0.00004138211,0.000011097938,0.00013837736],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9979886,0.0005232361,0.0007244675,0.00037168362,0.000086848144,0.00030519252],"domain_scores_gemma":[0.9990374,0.000063988984,0.00023759014,0.00044673582,0.00015107416,0.00006322698],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00044900295,0.00022669714,0.0010444394,0.00013971695,0.00012626512,0.0000061473584,0.00018086121,0.00023002688,0.0000025541608],"category_scores_gemma":[0.000066599794,0.0001544657,0.00009593449,0.00011455801,0.00026463936,0.000017052811,0.00011321365,0.00016505067,0.0000040984096],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000113891525,0.00008319376,0.003524687,0.00015687606,0.00024471112,0.000035425688,0.0020903468,0.00035794158,0.9454203,0.047772303,0.000112072594,0.000088199595],"study_design_scores_gemma":[0.03489264,0.09067373,0.02055949,0.009426144,0.0031373769,0.008283144,0.042371202,0.048246495,0.71411544,0.012724497,0.010229939,0.005339898],"about_ca_topic_score_codex":0.00069275836,"about_ca_topic_score_gemma":0.000023915196,"teacher_disagreement_score":0.23130491,"about_ca_system_score_codex":0.000035016794,"about_ca_system_score_gemma":0.00003553687,"threshold_uncertainty_score":0.6298929},"labels":[],"label_agreement":null},{"id":"W2138164217","doi":"10.15252/msb.20145216","title":"Measuring error rates in genomic perturbation screens: gold standards for human functional genomics","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":464,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"St. Michael's Hospital; Princess Margaret Cancer Centre; University Health Network; Ontario Institute for Cancer Research; University of Toronto","funders":"Ontario Institute for Cancer Research; Ontario Ministry of Research and Innovation; Canadian Institute for Advanced Research","keywords":"CRISPR; Biology; Computational biology; Functional genomics; RNA interference; Gene; Genomics; Genetics; Genome; RNA","score_opus":0.02152405074075081,"score_gpt":0.30640752189763765,"score_spread":0.28488347115688684,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2138164217","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.6248495,0.0018908161,0.3721692,0.000034656932,0.0003215262,0.00034851424,0.000044474426,0.000014641894,0.0003266914],"genre_scores_gemma":[0.9981691,0.000018931549,0.00057986804,0.00008408779,0.00035455351,0.00012950432,0.00038832639,0.000039877632,0.00023570572],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99874836,0.00010803072,0.00032637545,0.00042139806,0.000084201325,0.00031165],"domain_scores_gemma":[0.9994263,0.000016937214,0.000078270845,0.0002858821,0.00013421832,0.00005837789],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000617057,0.00019055666,0.00023322704,0.000102523765,0.00006018403,0.000025137824,0.00014425028,0.0002329716,0.0000031659386],"category_scores_gemma":[0.00012496847,0.00019611183,0.00009953742,0.000055645713,0.000041257565,0.0000023330201,0.00006027734,0.000076316435,0.0000027116093],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00004526802,0.000014493505,0.001429962,0.000055727607,0.000044040687,6.9757857e-7,0.000019573004,0.011493815,0.9838194,0.0024000728,0.00016843587,0.00050846644],"study_design_scores_gemma":[0.0050151483,0.0015882754,0.013383841,0.00011300565,0.00007977304,0.00007975383,0.00021221879,0.030090673,0.71739054,0.0012722797,0.22937419,0.0014003133],"about_ca_topic_score_codex":0.000054811466,"about_ca_topic_score_gemma":0.000075365635,"teacher_disagreement_score":0.37331966,"about_ca_system_score_codex":0.00007996051,"about_ca_system_score_gemma":0.000063663516,"threshold_uncertainty_score":0.7997208},"labels":[],"label_agreement":null},{"id":"W2140373545","doi":"10.1038/msb.2010.77","title":"Epistatic relationships reveal the functional organization of yeast transcription factors","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":57,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; National Institutes of Health","keywords":"Biology; Genetics; Gene; Saccharomyces cerevisiae; Epistasis; Transcription factor; Computational biology; Transcription (linguistics); Gene expression profiling; Gene expression; Regulation of gene expression","score_opus":0.020598188394214487,"score_gpt":0.24326861792090143,"score_spread":0.22267042952668695,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2140373545","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9788845,0.0002457047,0.019515626,0.00014498715,0.0005846352,0.00023721733,0.00004708079,0.00000872384,0.00033148914],"genre_scores_gemma":[0.99877006,0.000010891601,0.00009455349,0.000022868777,0.00012852099,0.000016579092,0.0005384862,0.000019302315,0.00039874486],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99894184,0.0002844966,0.00024592536,0.00023061398,0.00012646016,0.0001706739],"domain_scores_gemma":[0.9992644,0.00002251159,0.0000915469,0.0003164778,0.00025093698,0.000054117292],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003321653,0.00011015357,0.00011907979,0.000052791784,0.00012297826,0.00001571512,0.0001778968,0.0002224884,0.000026802218],"category_scores_gemma":[0.0002776501,0.0000800259,0.00005998126,0.00018415015,0.0001610677,0.0000023835798,0.000041588395,0.00021694883,0.000014704956],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000012342435,0.00002416082,0.032976396,0.000021087762,0.00003704374,4.854022e-7,0.00005605334,0.0001415481,0.9636232,0.0027922327,0.00024081088,0.00007462846],"study_design_scores_gemma":[0.0004030419,0.00021274545,0.09958773,0.000010606629,0.000030373863,0.00004628414,0.00020044204,0.0002131494,0.89255685,0.00021161279,0.0063277413,0.00019942554],"about_ca_topic_score_codex":0.00006228058,"about_ca_topic_score_gemma":0.00003500278,"teacher_disagreement_score":0.071066365,"about_ca_system_score_codex":0.0000069147327,"about_ca_system_score_gemma":0.00007720111,"threshold_uncertainty_score":0.32633615},"labels":[],"label_agreement":null},{"id":"W2141440692","doi":"10.1038/msb.2010.114","title":"A stele‐enriched gene regulatory network in the Arabidopsis root","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Plant Molecular Biology Research","field":"Agricultural and Biological Sciences","cited_by":174,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"National Institute of Diabetes and Digestive and Kidney Diseases; Natural Sciences and Engineering Research Council of Canada; Leverhulme Trust; Agricultural Research Service; National Institute of General Medical Sciences; Royal Society; National Institutes of Health; National Science Foundation","keywords":"Biology; Gene regulatory network; Arabidopsis; Regulation of gene expression; microRNA; Multicellular organism; Gene; Gene expression; Genetics; Transcription factor; Phenotype; Computational biology; Promoter; Regulatory sequence; Regulator gene; Cell biology","score_opus":0.03172986501268122,"score_gpt":0.22862254351857317,"score_spread":0.19689267850589195,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2141440692","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9934859,0.002817484,0.00012500171,0.00027487913,0.00025015452,0.00056751526,0.000020400594,0.00004853339,0.0024101196],"genre_scores_gemma":[0.9990117,0.000023660155,0.000056433593,0.00038264555,0.00019213863,0.00014365166,0.00012031744,0.0000022894583,0.00006715801],"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","domain_scores_codex":[0.99702513,0.0012210619,0.00036018816,0.0005011074,0.00017354485,0.00071896],"domain_scores_gemma":[0.9993333,0.00017517252,0.00011419372,0.00023654116,0.000056703197,0.00008405433],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0013489594,0.00021700042,0.00033347198,0.000031570944,0.00012983341,0.000028511819,0.0008691343,0.00035691937,0.00005757362],"category_scores_gemma":[0.00007885153,0.00007552228,0.00012261828,0.00058147387,0.00017091949,0.00002743158,0.0001459748,0.0002840248,0.00009058369],"study_design_candidate":"observational","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000056168265,0.00008209929,0.051818315,0.000005106071,0.000046410452,0.00027517922,0.0001084472,0.000012185661,0.93806845,0.0057767443,0.0004429741,0.003307942],"study_design_scores_gemma":[0.0005803224,0.0011419338,0.96388847,0.00004486396,0.000037380312,0.0007200643,0.0003823492,0.0002543398,0.016457573,0.002852378,0.012848447,0.0007918776],"about_ca_topic_score_codex":0.000895619,"about_ca_topic_score_gemma":0.0006831369,"teacher_disagreement_score":0.92161083,"about_ca_system_score_codex":0.000028550867,"about_ca_system_score_gemma":0.000015523367,"threshold_uncertainty_score":0.3079709},"labels":[],"label_agreement":null},{"id":"W2145435867","doi":"10.1038/msb.2011.77","title":"Controlled vocabularies and semantics in systems biology","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Biomedical Text Mining and Ontologies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":331,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Carleton University; Terry Fox Research Institute","funders":"National Institute of General Medical Sciences; Biotechnology and Biological Sciences Research Council; European Commission","keywords":"Ontology; Terminology; Semantics (computer science); Computer science; Systems biology; Reuse; Open Biomedical Ontologies; Biology; Data science; Semantic Web; Computational biology; Information retrieval; Ontology-based data integration; Programming language; Suggested Upper Merged Ontology","score_opus":0.021414049914752778,"score_gpt":0.25758304183875635,"score_spread":0.2361689919240036,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2145435867","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.93016976,0.037333135,0.028075028,0.00013795476,0.0013518583,0.0007760061,0.000033074648,0.000064985485,0.0020581773],"genre_scores_gemma":[0.9983892,0.00032454706,0.0005583452,0.00014185373,0.00012352945,0.00014738692,0.0000796095,0.000027421147,0.00020811279],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9976404,0.00056784094,0.0005696925,0.00062524795,0.00006959948,0.0005272632],"domain_scores_gemma":[0.99911666,0.00004686645,0.00018423687,0.00044850263,0.00008175881,0.00012195183],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006279367,0.0003010781,0.0007254366,0.00015930584,0.000063715845,0.0000277309,0.00028177974,0.0007684515,0.0000050078006],"category_scores_gemma":[0.0003398298,0.00024002143,0.00009535865,0.00012480794,0.0005465252,0.0000025199845,0.00019357097,0.00017501067,0.000010919293],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0011172243,0.00028876067,0.11146896,0.000299564,0.00077116594,0.00023228874,0.00059961,0.000031211188,0.82084227,0.05864514,0.0006390129,0.00506482],"study_design_scores_gemma":[0.08996324,0.024856376,0.04639323,0.001366148,0.0010860702,0.00446672,0.010635641,0.016179854,0.16109264,0.010994118,0.62250966,0.010456325],"about_ca_topic_score_codex":0.00064510305,"about_ca_topic_score_gemma":0.00005207084,"teacher_disagreement_score":0.6597496,"about_ca_system_score_codex":0.000014579475,"about_ca_system_score_gemma":0.00006385586,"threshold_uncertainty_score":0.97877896},"labels":[],"label_agreement":null},{"id":"W2148726194","doi":"10.1038/msb.2010.82","title":"Genetic interactions reveal the evolutionary trajectories of duplicate genes","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":122,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Human Genome Research Institute; National Institutes of Health; Canadian Institutes of Health Research; Genome Canada; Ontario Genomics; Magyar Tudományos Akadémia; Hungarian Scientific Research Fund; Ontario Genomics Institute; Canadian Institute for Advanced Research; University of Minnesota","keywords":"Biology; Gene; Genetics; Genome; Evolutionary biology; Computational biology","score_opus":0.006062301342679183,"score_gpt":0.23055917777715537,"score_spread":0.2244968764344762,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2148726194","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9648107,0.00419866,0.027427746,0.00021522975,0.0016717432,0.0003562228,0.000053681808,0.000013730871,0.0012522284],"genre_scores_gemma":[0.99805605,0.000059330807,0.0009464625,0.000101292455,0.00039437527,0.00006457873,0.00008075132,0.000016717744,0.00028041378],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99903,0.00009147962,0.00037230935,0.00022009523,0.00006118455,0.00022491213],"domain_scores_gemma":[0.9990638,0.00001965862,0.00018381668,0.00056723267,0.00011385182,0.00005164258],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001746251,0.00014819093,0.00017658931,0.00003799343,0.000099220466,0.000014340308,0.00032086237,0.00020438356,0.000010454798],"category_scores_gemma":[0.000030966363,0.00010683474,0.000118177806,0.00008423891,0.00024194321,0.0000023220484,0.00012060492,0.00017642355,0.000011367791],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000019396657,0.00002117245,0.0025718687,0.000020600673,0.000091784,0.0000011650548,0.00003130534,0.00021818196,0.9893121,0.004201968,0.0013642365,0.0021462196],"study_design_scores_gemma":[0.0014817425,0.0010234256,0.03206499,0.00005772282,0.00021056033,0.0013473067,0.00046862618,0.0072445897,0.23088434,0.0039941543,0.71993726,0.0012852788],"about_ca_topic_score_codex":0.00010832865,"about_ca_topic_score_gemma":0.000054128795,"teacher_disagreement_score":0.75842774,"about_ca_system_score_codex":0.0000061464225,"about_ca_system_score_gemma":0.00006281621,"threshold_uncertainty_score":0.43565944},"labels":[],"label_agreement":null},{"id":"W2150072274","doi":"10.15252/msb.20145160","title":"A system‐level model for the microbial regulatory genome","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":74,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval","funders":"Biological and Environmental Research; National Institute of General Medical Sciences; Fundação de Amparo à Pesquisa do Estado de São Paulo; U.S. Department of Energy; Office of Science; National Institutes of Health; National Science Foundation","keywords":"Regulon; Biology; Genome; ENCODE; Computational biology; Gene; Regulation of gene expression; Operon; Gene regulatory network; Genetics; Transcriptional regulation; Bacterial genome size; Regulatory sequence; Systems biology; Cis-regulatory module; Transcription factor; Promoter; Gene expression","score_opus":0.012799168538374844,"score_gpt":0.2215801313136763,"score_spread":0.20878096277530145,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2150072274","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.20946915,0.004412876,0.7844201,0.000114716,0.00051398046,0.00072314753,0.00008086886,0.000039719336,0.00022543842],"genre_scores_gemma":[0.99615276,0.000018686735,0.001042645,0.00026845848,0.00072292855,0.00029144445,0.00026494483,0.00006802329,0.0011700818],"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.997881,0.00032917148,0.0004609217,0.00068472355,0.000115608316,0.0005285866],"domain_scores_gemma":[0.998249,0.00003486183,0.0002272814,0.0011850618,0.00019423185,0.000109574285],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008908564,0.0003131928,0.00041114748,0.00007588751,0.00023803077,0.000040349518,0.0005939364,0.00040866548,0.0000017844042],"category_scores_gemma":[0.00006456747,0.00023860921,0.00037616762,0.00011949614,0.00017028632,0.0000020775444,0.00017277528,0.000090380134,0.00001631527],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000047658836,0.000016372896,0.00016279981,0.00008116756,0.00038204095,8.734389e-7,0.000019507928,0.0737256,0.9173433,0.006877903,0.00097005704,0.00037272155],"study_design_scores_gemma":[0.0017272562,0.00040664486,0.00054497505,0.000040954248,0.00048349396,0.000164417,0.000110215005,0.8246646,0.044112753,0.00014568823,0.12663458,0.0009644117],"about_ca_topic_score_codex":0.00004060137,"about_ca_topic_score_gemma":0.000036311885,"teacher_disagreement_score":0.8732305,"about_ca_system_score_codex":0.00005028953,"about_ca_system_score_gemma":0.00009307242,"threshold_uncertainty_score":0.97302014},"labels":[],"label_agreement":null},{"id":"W2150746148","doi":"10.1038/msb.2013.62","title":"Metabolic reconstruction identifies strain‐specific regulation of virulence in Toxoplasma gondii","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Toxoplasma gondii Research Studies","field":"Immunology and Microbiology","cited_by":49,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Calgary; Hospital for Sick Children; University of Toronto","funders":"Canadian Institutes of Health Research; National Institutes of Health; National Institute of Allergy and Infectious Diseases; Ontario Ministry of Research and Innovation; Natural Sciences and Engineering Research Council of Canada; Canadian Institute for Advanced Research","keywords":"Biology; Virulence; Toxoplasma gondii; Strain (injury); Infectivity; Pathogen; Genetics; Parasite hosting; Host (biology); Microbiology; Gene; Virus","score_opus":0.012256927453770461,"score_gpt":0.24056673498141196,"score_spread":0.2283098075276415,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2150746148","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98035395,0.0154737355,0.00096037873,0.00011653084,0.0013400378,0.0007665027,0.000059864233,0.00005083053,0.0008781627],"genre_scores_gemma":[0.9984931,0.0003541776,0.000112646805,0.000010554354,0.000023434697,0.00021180477,0.00008161958,0.00001584728,0.00069686695],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99755967,0.0008177601,0.000665901,0.00043775313,0.000052231273,0.00046670224],"domain_scores_gemma":[0.99898964,0.00013486009,0.00026254074,0.00039226626,0.00019671352,0.000023987846],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00043886804,0.00021126766,0.0005548875,0.00044861622,0.0000833095,0.00002109857,0.00026089422,0.00039039823,0.00027567163],"category_scores_gemma":[0.00015720978,0.00018800488,0.000096008465,0.00032879552,0.0005560735,0.00014643425,0.000117995885,0.00026778725,0.00049509434],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000024253954,0.00003579715,0.0058897524,0.000042657703,0.00013116018,0.0000026571915,0.00018957374,0.000042943233,0.9751971,0.010167742,0.00027222728,0.008004144],"study_design_scores_gemma":[0.0015477692,0.0002453959,0.11614088,0.0001485967,0.00002524833,0.00028059032,0.0012339057,0.000078334946,0.86819345,0.0024532725,0.00924199,0.00041057263],"about_ca_topic_score_codex":0.00081610144,"about_ca_topic_score_gemma":0.000069428934,"teacher_disagreement_score":0.11025113,"about_ca_system_score_codex":0.000051011215,"about_ca_system_score_gemma":0.000042230648,"threshold_uncertainty_score":0.76666164},"labels":[],"label_agreement":null},{"id":"W2150917095","doi":"10.1038/msb4100037","title":"Physics takes another stab at biological design principles","year":2005,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":false,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Ottawa","funders":"","keywords":"Biology; Stab; Computational biology; Engineering ethics; Engineering; Anatomy","score_opus":0.035909174874849195,"score_gpt":0.24690297285148385,"score_spread":0.21099379797663464,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2150917095","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.7012051,0.011884962,0.28467974,0.00015065359,0.00024755785,0.0005029694,0.000025894424,0.00006850691,0.0012346683],"genre_scores_gemma":[0.9938465,0.00014365908,0.003064802,0.00038507397,0.0007457164,0.00009129994,0.00020950624,0.00005334473,0.0014601445],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9975056,0.0006245443,0.00042546244,0.0007598038,0.00012626415,0.0005583048],"domain_scores_gemma":[0.9987852,0.000021722688,0.00020784531,0.0007667952,0.00010559891,0.00011283911],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00040060197,0.00034936538,0.0004184995,0.000054219538,0.00012836051,0.000026213003,0.00038220358,0.00047223203,0.000042804295],"category_scores_gemma":[0.000050538132,0.00029092596,0.00024495943,0.00016056033,0.00020399937,0.0000031806403,0.00018923501,0.00009497664,0.00013942442],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00006255952,0.00006347728,0.0050229556,0.000010166886,0.00028021095,0.000008310911,0.000020144547,0.018889267,0.9717567,0.00095116225,0.0013660552,0.001568969],"study_design_scores_gemma":[0.0007253369,0.0005012025,0.000773273,0.000015322652,0.000075343734,0.000085247935,0.00003291157,0.004631167,0.52571684,0.000052772975,0.46668324,0.00070732785],"about_ca_topic_score_codex":0.000016406197,"about_ca_topic_score_gemma":0.000018739735,"teacher_disagreement_score":0.4653172,"about_ca_system_score_codex":0.000069609436,"about_ca_system_score_gemma":0.000059939146,"threshold_uncertainty_score":0.9999543},"labels":[],"label_agreement":null},{"id":"W2151178734","doi":"10.1038/msb.2011.80","title":"Mapping the interaction of Snf1 with TORC1 in Saccharomyces cerevisiae","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":194,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Fondation Chalmers; SystemsX.ch; Knut och Alice Wallenbergs Stiftelse","keywords":"Biology; Saccharomyces cerevisiae; Biochemistry; Metabolism; Assimilation (phonology); Peroxisome; Cell biology; Yeast; Gene","score_opus":0.03642573966188735,"score_gpt":0.26540495675114967,"score_spread":0.22897921708926233,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2151178734","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9899172,0.0027370648,0.0035213006,0.00003995957,0.000156808,0.00029354505,0.000007323436,0.000004698518,0.0033220523],"genre_scores_gemma":[0.99951106,0.000074150936,0.0001392145,0.000037959668,0.000057293557,0.000051196857,0.000023389062,0.000014203307,0.00009150826],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99894017,0.0002416834,0.00024317113,0.00027015613,0.00007815604,0.00022666443],"domain_scores_gemma":[0.9994177,0.000011177783,0.00010078016,0.00034614536,0.00008703373,0.00003716416],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00026532277,0.00012206862,0.00017300737,0.000080783546,0.000027327504,0.000008604989,0.00026264004,0.00012743086,0.000016729862],"category_scores_gemma":[0.000030934436,0.000077019264,0.00005098843,0.00015495722,0.00011652726,0.0000022150728,0.00010590392,0.00010832148,0.000008017894],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0001074675,0.00003944735,0.021531653,0.00005132581,0.00006602189,0.000008891424,0.00019605631,0.00007312803,0.97650653,0.0004402261,0.000041936913,0.00093729305],"study_design_scores_gemma":[0.0008243739,0.001337109,0.012233615,0.00013498352,0.000013680628,0.0001324139,0.001473719,0.0004059338,0.9724249,0.00010214501,0.010589379,0.00032774167],"about_ca_topic_score_codex":0.0004308037,"about_ca_topic_score_gemma":0.000060202277,"teacher_disagreement_score":0.010547442,"about_ca_system_score_codex":0.00001074946,"about_ca_system_score_gemma":0.000038799953,"threshold_uncertainty_score":0.31407544},"labels":[],"label_agreement":null},{"id":"W2152027903","doi":"10.15252/msb.20134993","title":"A computational study of the Warburg effect identifies metabolic targets inhibiting cancer migration","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cancer, Hypoxia, and Metabolism","field":"Biochemistry, Genetics and Molecular Biology","cited_by":145,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Sociale en Geesteswetenschappen, NWO; Medical Research Council; Azrieli Foundation; Israel Science Foundation","keywords":"Warburg effect; Biology; Cancer cell; Cancer; Cancer research; Glycolysis; Anaerobic glycolysis; Cell culture; Cell growth; Gene silencing; Cell biology; Genetics; Biochemistry; Gene; Metabolism","score_opus":0.005930630633588165,"score_gpt":0.2538457967538198,"score_spread":0.24791516612023162,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2152027903","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9799195,0.012317102,0.004920141,0.000049460617,0.0020093676,0.00067157205,0.000021553033,0.000012572705,0.000078742916],"genre_scores_gemma":[0.99864495,0.00007596317,0.00002817407,0.00009981688,0.00072125735,0.00019539583,0.000058861584,0.00002215508,0.00015345338],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9980578,0.0007906539,0.00037768064,0.0003842354,0.00016016592,0.00022950857],"domain_scores_gemma":[0.9991559,0.000028481914,0.00026621975,0.00034765765,0.00015757691,0.00004420834],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00048768954,0.00019369637,0.00036382247,0.00006291814,0.00010874737,0.000021196542,0.0002284902,0.00014964188,0.0000033011495],"category_scores_gemma":[0.00014201117,0.00013982825,0.00014539242,0.0001447445,0.00009224775,0.000003710252,0.0001331664,0.000090662106,0.0000022562338],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000039651015,0.000077873214,0.010998389,0.000053180815,0.00021867137,3.5384042e-7,0.00023240704,0.008779985,0.97639,0.00038966074,0.0003818757,0.002437919],"study_design_scores_gemma":[0.0048770932,0.0013812057,0.028608294,0.00013652281,0.0004931392,0.00004873823,0.0005390899,0.0055129644,0.8505429,0.00023779678,0.10680057,0.0008216695],"about_ca_topic_score_codex":0.0012201237,"about_ca_topic_score_gemma":0.00040654297,"teacher_disagreement_score":0.12584712,"about_ca_system_score_codex":0.000009390963,"about_ca_system_score_gemma":0.000055210858,"threshold_uncertainty_score":0.57020307},"labels":[],"label_agreement":null},{"id":"W2152223517","doi":"10.1038/msb.2008.31","title":"Colored extrinsic fluctuations and stochastic gene expression","year":2008,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":273,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"William Osler Health System; McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Mitacs","keywords":"Biology; Biological system; Statistical physics; Noise (video); Colors of noise; Feed forward; Gene regulatory network; Stochastic process; Negative feedback; Physics; Function (biology); Gene expression; Gene; Genetics; Computer science; Statistics; Mathematics; Quantum mechanics","score_opus":0.00980371723301397,"score_gpt":0.22403158051118613,"score_spread":0.21422786327817217,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2152223517","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8894147,0.008160629,0.10179444,0.000037167534,0.00019641966,0.0002596898,0.00001565657,0.000023764333,0.00009753449],"genre_scores_gemma":[0.99822205,0.00012759508,0.000729372,0.00007444808,0.00019103993,0.000080034966,0.00026691158,0.000029171857,0.00027939884],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99855924,0.00023157727,0.00028623536,0.00052561006,0.00009802793,0.000299328],"domain_scores_gemma":[0.9991478,0.000012993937,0.000119038625,0.0004887721,0.00010258765,0.00012882627],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00013661965,0.0002084292,0.0002777084,0.00009989572,0.00018419644,0.000012310934,0.00015910015,0.00027159494,0.000007083229],"category_scores_gemma":[0.000060369166,0.00019540553,0.00009745357,0.00014478705,0.00019877541,0.00000250365,0.0001483074,0.00007139187,0.000013953721],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000021151685,0.000020805757,0.0013480484,0.0000073747533,0.000090865666,0.000015012725,0.000026030213,0.0031190033,0.99463886,0.00015535206,0.0003902782,0.00016722157],"study_design_scores_gemma":[0.002750475,0.0010340388,0.011356062,0.000054305987,0.00025461076,0.001893209,0.00016226966,0.008187921,0.95298105,0.00021519502,0.019656492,0.001454379],"about_ca_topic_score_codex":0.000024508867,"about_ca_topic_score_gemma":0.0000058880896,"teacher_disagreement_score":0.108807325,"about_ca_system_score_codex":0.000016346768,"about_ca_system_score_gemma":0.00006439763,"threshold_uncertainty_score":0.79684067},"labels":[],"label_agreement":null},{"id":"W2155626151","doi":"10.1038/msb.2011.71","title":"Systematic exploration of synergistic drug pairs","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Computational Drug Discovery Methods","field":"Computer Science","cited_by":327,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital; University of Toronto","funders":"National Human Genome Research Institute; National Institute of General Medical Sciences; Türkiye Bilimsel ve Teknolojik Araştırma Kurumu; National Institute of Mental Health; Canadian Institutes of Health Research; National Cancer Institute; National Institutes of Health","keywords":"Drug; Biology; Computational biology; Antifungal drug; Antifungal drugs; Pharmacology; Promiscuity; Bioavailability; Drug discovery; Drug development; Genetics; Bioinformatics; Candida albicans","score_opus":0.04421310378962579,"score_gpt":0.2785228367357592,"score_spread":0.23430973294613344,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2155626151","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.026999863,0.00092930393,0.96897846,0.000035412046,0.0009126114,0.0004342358,0.000002923295,0.00008694749,0.0016202393],"genre_scores_gemma":[0.98072493,0.0000027761946,0.019062132,0.00003265615,0.000019166875,0.00009997338,0.0000057429734,0.000009874037,0.000042732754],"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.9974136,0.0012942433,0.0005954045,0.00033476483,0.00017027368,0.00019176713],"domain_scores_gemma":[0.9986038,0.00023122595,0.00033540715,0.00061192043,0.0001617409,0.00005590521],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0009549895,0.00014376888,0.0004053146,0.00018259713,0.00003498275,0.000025789715,0.00067091454,0.00006781064,0.0000030130816],"category_scores_gemma":[0.00023347375,0.00012298567,0.00009650332,0.0003266983,0.00006082032,0.00025387332,0.00016753997,0.00006171505,0.000037470007],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000047457506,0.000060133196,0.0000793434,0.0026831126,0.00009411925,0.000030131418,0.0014709645,0.004040479,0.01047183,0.9808197,0.000035662193,0.00020979214],"study_design_scores_gemma":[0.0009787686,0.00056480576,0.00062519085,0.003700738,0.00014830964,0.0001490225,0.0008151395,0.7879235,0.07152077,0.13228692,0.00012479734,0.0011620222],"about_ca_topic_score_codex":0.00016724167,"about_ca_topic_score_gemma":0.0000026980322,"teacher_disagreement_score":0.9537251,"about_ca_system_score_codex":0.000034986737,"about_ca_system_score_gemma":0.00006549841,"threshold_uncertainty_score":0.50152105},"labels":[],"label_agreement":null},{"id":"W2155822873","doi":"10.1038/msb.2009.72","title":"Application of an integrated physical and functional screening approach to identify inhibitors of the Wnt pathway","year":2009,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":56,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital; University of Toronto","funders":"National Human Genome Research Institute; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; Howard Hughes Medical Institute; Canada Research Chairs; Ontario Genomics Institute; Canadian Institutes of Health Research; Genome Canada","keywords":"Wnt signaling pathway; Regulator; Computational biology; Biology; Signal transduction; Gene knockdown; Biological pathway; Protein–protein interaction; Cell biology; Bioinformatics; Gene; Genetics; Gene expression","score_opus":0.012848593835036374,"score_gpt":0.2534271081223927,"score_spread":0.24057851428735635,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2155822873","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8781659,0.0002973282,0.12072737,0.000031763928,0.00007032145,0.0004133677,0.000028886458,0.0000074480677,0.0002576433],"genre_scores_gemma":[0.9989887,0.0000015544256,0.00060600473,0.00008199112,0.00010848729,0.00004541649,0.00014118565,0.000009467086,0.000017176262],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.999007,0.00021784505,0.00023413895,0.00031004022,0.00009363597,0.00013735502],"domain_scores_gemma":[0.999377,0.0000059015583,0.00014089592,0.00030930515,0.00010803821,0.000058872123],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00022706289,0.00012458095,0.0001941029,0.00004450496,0.000040809395,0.000007897203,0.00015114785,0.00015018291,3.4077908e-7],"category_scores_gemma":[0.00004224084,0.00009053906,0.00007459458,0.0001427121,0.000088538174,0.000002827455,0.000071047805,0.00007573249,6.43288e-7],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000043672717,0.000084026186,0.00046112153,0.000021247917,0.000023405306,1.7049517e-7,0.000057227586,0.00032919453,0.9902874,0.0028806552,0.000014568539,0.005797297],"study_design_scores_gemma":[0.00025922174,0.00047026263,0.005379217,0.000020089143,0.000012183001,0.000020019925,0.00009862827,0.0013489127,0.9907149,0.00014114854,0.0014160664,0.00011934185],"about_ca_topic_score_codex":0.000061917606,"about_ca_topic_score_gemma":0.00000184904,"teacher_disagreement_score":0.12082285,"about_ca_system_score_codex":0.0000057984203,"about_ca_system_score_gemma":0.000031527186,"threshold_uncertainty_score":0.36920756},"labels":[],"label_agreement":null},{"id":"W2156010838","doi":"10.15252/msb.20145114","title":"Allelic expression mapping across cellular lineages to establish impact of non‐coding SNPs","year":2014,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McGill Genome Centre; McGill University and Génome Québec Innovation Centre","funders":"Science for Life Laboratory; Knut och Alice Wallenbergs Stiftelse; British Heart Foundation; Vetenskapsrådet; Canadian Institutes of Health Research; National Institute for Health and Care Research; Genome Canada","keywords":"Biology; Single-nucleotide polymorphism; International HapMap Project; Genetics; Genome-wide association study; SNP; Transcription factor; Allele; Computational biology; Genetic association; Gene; Genotype","score_opus":0.007261863880256988,"score_gpt":0.26510376909115957,"score_spread":0.25784190521090256,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2156010838","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.7616644,0.00041860773,0.23700857,0.00001760544,0.00026792882,0.0002609131,0.00004501485,0.000012466607,0.0003044728],"genre_scores_gemma":[0.9974319,0.000032891963,0.0017756085,0.00007602644,0.00022533629,0.00003754505,0.00025630055,0.000045351524,0.00011908893],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9982061,0.00019176996,0.00048522567,0.0005279571,0.00009777699,0.0004911874],"domain_scores_gemma":[0.99873316,0.000018237262,0.00024262132,0.00070040114,0.0001488981,0.0001566888],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00050336384,0.00027402287,0.00042227295,0.00008459399,0.000088089626,0.00004258891,0.0004217688,0.00035356573,0.0000048597317],"category_scores_gemma":[0.0001383681,0.00024230356,0.00023700694,0.00013601105,0.0000637183,0.0000033428266,0.00035310056,0.00010345342,0.000011471024],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000020849922,0.000031258864,0.0027439606,0.000069469286,0.000074440686,0.0000033664178,0.00013031876,0.004251885,0.9917185,0.000076387754,0.00024132658,0.0006382733],"study_design_scores_gemma":[0.0009291514,0.0011347425,0.0033202781,0.00014836052,0.000019425917,0.00003357561,0.00024609806,0.012945617,0.9707009,0.000040323255,0.009857512,0.00062401884],"about_ca_topic_score_codex":0.00019320358,"about_ca_topic_score_gemma":0.000010177009,"teacher_disagreement_score":0.23576742,"about_ca_system_score_codex":0.000032579883,"about_ca_system_score_gemma":0.00004811089,"threshold_uncertainty_score":0.98808527},"labels":[],"label_agreement":null},{"id":"W2156361395","doi":"10.1038/msb.2010.61","title":"Modeling genome‐wide replication kinetics reveals a mechanism for regulation of replication timing","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"DNA Repair Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":132,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Simon Fraser University","funders":"Natural Sciences and Engineering Research Council of Canada; American Cancer Society","keywords":"Replication (statistics); Replication timing; Biology; Origin of replication; Minichromosome maintenance; Computational biology; Origin recognition complex; Mechanism (biology); DNA replication; Minichromosome; Genome; Chromatin; Genetics; DNA; Eukaryotic DNA replication; Gene; Physics","score_opus":0.01801413166576629,"score_gpt":0.2712470660161777,"score_spread":0.25323293435041144,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2156361395","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.52485627,0.000120140576,0.4738693,0.00006960256,0.00022009721,0.0007010064,0.000023002505,0.000025399619,0.00011518893],"genre_scores_gemma":[0.9802023,0.000014458978,0.018076435,0.00011752175,0.00017158277,0.00035678342,0.00082662073,0.000052412182,0.00018185681],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99804395,0.000118053125,0.0006092158,0.00085144717,0.00010614022,0.00027119188],"domain_scores_gemma":[0.9971799,0.000020662403,0.00035071315,0.0018650346,0.00051452534,0.00006912413],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00082340307,0.00019524482,0.0002777807,0.00010173375,0.00006160001,0.000015734504,0.00029552984,0.00048007292,0.0000027915737],"category_scores_gemma":[0.0008459979,0.00020589196,0.00013933357,0.00010221966,0.000041735853,0.000004860872,0.00009210773,0.00009411002,0.0000031857467],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000366681,0.000031388492,0.000072968796,0.000065981054,0.00004319153,2.2651045e-7,0.000018668676,0.0011800984,0.9634882,0.034606263,0.000020057187,0.000436244],"study_design_scores_gemma":[0.00035473533,0.0003544686,0.00007079527,0.000017440336,0.000039403458,0.00002847572,0.000019701201,0.05493544,0.93706495,0.0057013123,0.0011931098,0.00022015131],"about_ca_topic_score_codex":0.000032454023,"about_ca_topic_score_gemma":0.000010851399,"teacher_disagreement_score":0.45579287,"about_ca_system_score_codex":0.00002159529,"about_ca_system_score_gemma":0.000040192674,"threshold_uncertainty_score":0.83960307},"labels":[],"label_agreement":null},{"id":"W2157428620","doi":"10.1038/msb.2010.80","title":"Molecular characterization of the evolution of phagosomes","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":156,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval; Institute for Research in Immunology and Cancer; Université de Montréal","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Phagosome; Biology; Proteome; Organelle; Acquired immune system; Innate immune system; Phagocytosis; Cell biology; Immune system; Multicellular organism; Computational biology; Gene; Immunology; Bioinformatics; Genetics","score_opus":0.004509911470633369,"score_gpt":0.23987889757028685,"score_spread":0.23536898609965348,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2157428620","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9914384,0.0005418188,0.0064614415,0.00011044128,0.00065485324,0.0003874904,0.000069626185,0.000007321223,0.00032864342],"genre_scores_gemma":[0.99960625,0.000022625174,0.000057313195,0.0000218963,0.00007792688,0.000042635616,0.00008005683,0.00001842332,0.00007288428],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99878055,0.00024593322,0.00033840473,0.0002735972,0.0001370019,0.00022454192],"domain_scores_gemma":[0.9988199,0.000008040594,0.0002650139,0.0006135243,0.00025490337,0.000038646198],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002381932,0.00014472204,0.00024835355,0.00006767638,0.00004491761,0.00000696116,0.0003680627,0.0002264641,0.0000048227475],"category_scores_gemma":[0.00023115054,0.00010660016,0.00013945205,0.00017022525,0.0003193135,0.000003211376,0.00025772557,0.00011534058,0.0000021175417],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000025932875,0.000034819237,0.009085593,0.00005719148,0.00009831685,9.297185e-7,0.000016407897,0.000008640872,0.9859571,0.0045295106,0.000012562064,0.00017301436],"study_design_scores_gemma":[0.00028279485,0.00015244898,0.016392363,0.000016836475,0.000017173796,0.000012615105,0.000023973023,0.000055630288,0.9805195,0.000053078253,0.0023699591,0.00010363961],"about_ca_topic_score_codex":0.000108238804,"about_ca_topic_score_gemma":0.000016195992,"teacher_disagreement_score":0.008167874,"about_ca_system_score_codex":0.000015405449,"about_ca_system_score_gemma":0.0001158646,"threshold_uncertainty_score":0.4347028},"labels":[],"label_agreement":null},{"id":"W2158900785","doi":"10.1038/msb.2012.9","title":"Single‐cell analysis of population context advances RNAi screening at multiple levels","year":2012,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"RNA Interference and Gene Delivery","field":"Biochemistry, Genetics and Molecular Biology","cited_by":173,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"SystemsX.ch; Canadian Institutes of Health Research; Eidgenössische Technische Hochschule Zürich; National Center of Competence in Research Chemical Biology; Universität Zürich; European Commission; Federation of European Biochemical Societies; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; National Science Foundation","keywords":"Biology; Context (archaeology); RNA interference; Computational biology; Population; Genetics; Gene; RNA; Environmental health","score_opus":0.02443840797709173,"score_gpt":0.26667350163560133,"score_spread":0.2422350936585096,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2158900785","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95634776,0.016138975,0.026513327,0.00000954278,0.00033761872,0.00016527544,0.00008607868,0.0000108857785,0.00039053048],"genre_scores_gemma":[0.998494,0.00005235393,0.00023907734,0.00009829758,0.00010974916,0.000020151405,0.0007487913,0.000017937482,0.00021961595],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9986232,0.00021142732,0.00040822674,0.00032418512,0.00009521355,0.00033774035],"domain_scores_gemma":[0.99910474,0.000024715015,0.00028387445,0.000385273,0.000115804105,0.00008560383],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00022019519,0.00018557336,0.00038767827,0.00016922776,0.00005637365,0.000009109226,0.00017898172,0.00024086221,0.000016072747],"category_scores_gemma":[0.00007017193,0.00017080369,0.00023786274,0.00021319791,0.00006371316,0.0000092999335,0.00012262256,0.000051382816,0.000010183747],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000050412127,0.000047058373,0.21463592,0.000019949686,0.00036682433,9.027024e-7,0.000035176152,0.0007036936,0.78245866,0.000046515284,0.000043501925,0.0015913793],"study_design_scores_gemma":[0.0006760794,0.00040412412,0.03653485,0.000024108289,0.0003776617,0.000012225713,0.00020466799,0.0010279018,0.94437575,0.000004127388,0.015997099,0.00036137606],"about_ca_topic_score_codex":0.00036197656,"about_ca_topic_score_gemma":0.00018511552,"teacher_disagreement_score":0.17810106,"about_ca_system_score_codex":0.000024150722,"about_ca_system_score_gemma":0.000008267082,"threshold_uncertainty_score":0.6965172},"labels":[],"label_agreement":null},{"id":"W2159241859","doi":"10.1038/msb.2010.71","title":"Dynamic interaction networks in a hierarchically organized tissue","year":2010,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cancer Cells and Metastasis","field":"Medicine","cited_by":143,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University Health Network; Heart and Stroke Foundation; Occupational Cancer Research Centre; Mount Sinai Hospital; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Cell biology; Intracellular; Stem cell; Progenitor cell; Cell fate determination; Cellular differentiation; Neuroscience; Transcription factor; Genetics","score_opus":0.005031726258611793,"score_gpt":0.28707668811137776,"score_spread":0.28204496185276595,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2159241859","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95780843,0.0009867152,0.03629892,0.0005783538,0.0022085959,0.0005164278,0.0000041410203,0.000049449114,0.0015489543],"genre_scores_gemma":[0.9985285,0.000046186567,0.00066635717,0.0002570832,0.000101439335,0.00004154091,0.000061410145,0.000022688886,0.00027481304],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99905944,0.00010564492,0.00027459982,0.0002655315,0.000058373644,0.00023640068],"domain_scores_gemma":[0.99948144,0.000028633738,0.00006844645,0.00027937797,0.00005042369,0.00009170474],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00021270805,0.000118184136,0.00033626406,0.00013750624,0.000018240937,0.000012040795,0.00007127539,0.00020775765,0.00010399506],"category_scores_gemma":[0.00006919005,0.00009920288,0.00004998186,0.00020141943,0.000049011727,0.000015765503,0.000035022633,0.00044657785,0.00003685191],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000111295434,0.000057038196,0.0012090998,0.000041158593,0.000040906027,0.00019711476,0.000038308495,0.000056129324,0.982983,0.000778561,0.000059679023,0.014427705],"study_design_scores_gemma":[0.018557534,0.0032098277,0.021541445,0.00075362634,0.0005207554,0.0077823624,0.0004073988,0.07130594,0.0951819,0.00055269024,0.7784061,0.0017804722],"about_ca_topic_score_codex":0.0005524139,"about_ca_topic_score_gemma":0.00047554824,"teacher_disagreement_score":0.8878011,"about_ca_system_score_codex":0.00005313451,"about_ca_system_score_gemma":0.000055898796,"threshold_uncertainty_score":0.4045376},"labels":[],"label_agreement":null},{"id":"W2160845585","doi":"10.1038/msb.2009.83","title":"Strategies for cellular decision‐making","year":2009,"lang":"en","type":"review","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":338,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Ottawa Hospital","funders":"Natural Sciences and Engineering Research Council of Canada; Ottawa Hospital Research Institute","keywords":"Biology; Probabilistic logic; Context (archaeology); Computational biology; Computer science; Risk analysis (engineering); Artificial intelligence; Business","score_opus":0.022662960022535025,"score_gpt":0.32107412236699423,"score_spread":0.2984111623444592,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2160845585","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.000048957612,0.7723004,0.22549622,0.0000033580627,0.00058515277,0.0011406731,0.00007006234,0.00003151999,0.0003236197],"genre_scores_gemma":[0.00503692,0.98935497,0.0019914196,0.00006873048,0.0010413696,0.0004999123,0.001616278,0.00016229489,0.00022808238],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.9961087,0.00055217923,0.0011105476,0.0013255024,0.00016225257,0.0007407943],"domain_scores_gemma":[0.99752086,0.00007490151,0.000690832,0.0013941865,0.00018856111,0.00013067137],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.00057800824,0.0008343736,0.002231355,0.00028797265,0.000140427,0.00012535938,0.0008598428,0.0015815768,0.000007461234],"category_scores_gemma":[0.000081790546,0.0007172969,0.0015831308,0.0003134339,0.00010991274,0.000003207155,0.00019656049,0.00021501932,0.000032668828],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00002814491,0.00005679499,0.0000025876827,0.0042168656,0.0015813744,0.000037615846,0.0000065712356,0.00071878004,0.0038679852,0.0045030643,0.004359259,0.980621],"study_design_scores_gemma":[0.00019283428,0.00029653485,1.6168775e-7,0.0019092364,0.0009547898,0.00008229839,0.00001876418,0.000117814336,0.00007467556,0.0004405742,0.99518174,0.00073059194],"about_ca_topic_score_codex":0.000006134652,"about_ca_topic_score_gemma":0.000007664175,"teacher_disagreement_score":0.9908225,"about_ca_system_score_codex":0.00006827058,"about_ca_system_score_gemma":0.00051816803,"threshold_uncertainty_score":0.99971455},"labels":[],"label_agreement":null},{"id":"W2161028192","doi":"10.1038/msb.2013.25","title":"Phosphoproteome dynamics reveal novel ERK1/2 MAP kinase substrates with broad spectrum of functions","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Melanoma and MAPK Pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":156,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"Canada Research Chairs; Canadian Institutes of Health Research; Fondation de France; Cancer Research Society","keywords":"Biology; Phosphoproteomics; Kinase; Cell biology; Phosphorylation; Alternative splicing; Chromatin; Computational biology; Protein phosphorylation; Genetics; Protein kinase A; Gene; Gene isoform","score_opus":0.005699035251137267,"score_gpt":0.1940205345149684,"score_spread":0.18832149926383113,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2161028192","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9491472,0.0014770174,0.04583116,0.00021601903,0.00047033615,0.00077613094,0.0001656215,0.000029016324,0.0018874925],"genre_scores_gemma":[0.9964553,0.000012073759,0.0009406651,0.000068867834,0.00013552577,0.00019870502,0.0006545235,0.000040799892,0.0014935365],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9984554,0.00009149024,0.000392212,0.0005250449,0.00010963876,0.0004261997],"domain_scores_gemma":[0.99863994,0.000009826921,0.00022276834,0.0008359533,0.0001617515,0.0001297601],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00013885315,0.00028233268,0.00036081445,0.00008218719,0.00006739223,0.000026311216,0.0003419226,0.00033671278,0.000037931117],"category_scores_gemma":[0.000034289624,0.00023001476,0.00011538225,0.00013966777,0.0001849762,0.000005559919,0.00012661585,0.0001316815,0.00006776676],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000058186237,0.00009402374,0.0049982346,0.000089336645,0.00014878003,0.000011616301,0.000011587907,0.00009645246,0.99020165,0.0034497674,0.00066730374,0.00017306789],"study_design_scores_gemma":[0.0018301967,0.002977395,0.0039361217,0.00009453787,0.000086633605,0.00032212085,0.00033722716,0.00081369677,0.9793166,0.00027707126,0.009223745,0.0007846502],"about_ca_topic_score_codex":0.001138665,"about_ca_topic_score_gemma":0.00014747829,"teacher_disagreement_score":0.047308095,"about_ca_system_score_codex":0.000028660626,"about_ca_system_score_gemma":0.00010034433,"threshold_uncertainty_score":0.93797296},"labels":[],"label_agreement":null},{"id":"W2162640412","doi":"10.1038/msb.2013.47","title":"Protein synthesis rate is the predominant regulator of protein expression during differentiation","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":237,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"Canadian Institutes of Health Research; University of British Columbia","keywords":"Biology; Proteome; Protein biosynthesis; Proteomics; Protein degradation; Gene expression; Protein expression; Cell biology; Systems biology; Regulator; Regulation of gene expression; Translation (biology); Transcription (linguistics); Transcription factor; Messenger RNA; Gene; Computational biology; Biochemistry","score_opus":0.005759248320309556,"score_gpt":0.22092173393280978,"score_spread":0.21516248561250023,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2162640412","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.969149,0.00023400498,0.02862108,0.00022583667,0.000013033082,0.0014456317,0.000025312134,0.000067538036,0.00021854765],"genre_scores_gemma":[0.9910993,0.000005727298,0.0018417917,0.00000657436,0.00003264822,0.0063872207,0.0000104171095,0.000024035882,0.00059228187],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99898887,0.00009722613,0.00036087152,0.00028575884,0.00007264174,0.00019464384],"domain_scores_gemma":[0.9988892,0.000025169657,0.00034303317,0.0006193982,0.00008789121,0.000035286506],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001036259,0.0001493871,0.00022217273,0.000031214557,0.0001046623,0.00001992978,0.0002649434,0.00017940495,0.00013174948],"category_scores_gemma":[0.000057635825,0.000098678334,0.00007899916,0.000068331894,0.000076015,0.000036859674,0.00010239292,0.000109337445,0.000015017305],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000011517132,0.00002462339,0.00009532083,0.00019190968,0.000017837438,4.1364382e-7,0.000032573345,0.000005751717,0.9970186,0.0023066448,0.00001298561,0.00028183346],"study_design_scores_gemma":[0.00011714232,0.000011747414,0.0000905299,0.00026110676,0.000009166849,0.0000033266256,0.000036261332,0.00049925374,0.99699724,0.0015576314,0.0003015989,0.00011501312],"about_ca_topic_score_codex":0.00011754292,"about_ca_topic_score_gemma":4.352779e-7,"teacher_disagreement_score":0.026779287,"about_ca_system_score_codex":0.00003530079,"about_ca_system_score_gemma":0.0000135728815,"threshold_uncertainty_score":0.4023986},"labels":[],"label_agreement":null},{"id":"W2163783674","doi":"10.1038/msb.2008.55","title":"InnateDB: facilitating systems‐level analyses of the mammalian innate immune response","year":2008,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":407,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Simon Fraser University; University of British Columbia","funders":"Sanofi Pasteur; Canada Research Chairs; Genome British Columbia; Michael Smith Health Research BC; Canadian Institutes of Health Research; National Institute for Health and Care Research; Genome Canada; Foundation for the National Institutes of Health","keywords":"Biology; Innate immune system; Immune system; Computational biology; Immunology","score_opus":0.048161900817651364,"score_gpt":0.2838055398048725,"score_spread":0.23564363898722113,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2163783674","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98451364,0.007919175,0.006016893,0.000069117166,0.0004792624,0.00046160977,0.000112510155,0.000015560192,0.00041223678],"genre_scores_gemma":[0.99863636,0.00006527748,0.0002297446,0.000051582858,0.0000439871,0.000058614412,0.00010884652,0.000027817046,0.0007777516],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9975366,0.00076408015,0.0008591216,0.00031692846,0.0001555893,0.00036768877],"domain_scores_gemma":[0.99828136,0.0000414322,0.0004663731,0.00090711185,0.0002481582,0.000055557095],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000724682,0.00029138036,0.00047144337,0.00011366582,0.00018583392,0.00002012712,0.0005585976,0.0003131159,0.000002728132],"category_scores_gemma":[0.00042206762,0.00019035333,0.00025837784,0.000305042,0.00019872101,0.000006355697,0.0003016394,0.00015565513,0.000009589287],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0001766592,0.00003029745,0.0014766982,0.00010376417,0.00022185517,0.0000054830557,0.0001868425,0.0015792662,0.99562323,0.00033082117,0.00017334812,0.00009174061],"study_design_scores_gemma":[0.0020162684,0.000983992,0.018693343,0.00015962608,0.00010529904,0.00084160635,0.0021210343,0.004530409,0.9520997,0.000022253029,0.017608095,0.00081840594],"about_ca_topic_score_codex":0.00048385863,"about_ca_topic_score_gemma":0.000002510155,"teacher_disagreement_score":0.043523557,"about_ca_system_score_codex":0.000024668256,"about_ca_system_score_gemma":0.00013524859,"threshold_uncertainty_score":0.7762384},"labels":[],"label_agreement":null},{"id":"W2164963523","doi":"10.1038/msb.2009.85","title":"Comparison of substrate specificity of the ubiquitin ligases Nedd4 and Nedd4‐2 using proteome arrays","year":2009,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":159,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Hospital for Sick Children; University of Toronto","funders":"National Cancer Institute; Canadian Institutes of Health Research; Canada Research Chairs","keywords":"NEDD4; Ubiquitin; Ubiquitin ligase; Biology; Ubiquitin-Protein Ligases; Cell biology; WW domain; Biochemistry; Gene","score_opus":0.03285872586865448,"score_gpt":0.2994119007075522,"score_spread":0.26655317483889773,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2164963523","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98618937,0.0038796556,0.008372962,0.00011225704,0.0001633595,0.0006728084,0.000060014157,0.000010411141,0.00053918356],"genre_scores_gemma":[0.9992017,0.000030545914,0.00048629518,0.00009941538,0.00009760129,0.000014352996,0.000029688308,0.000014713573,0.00002568545],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99831706,0.00037873673,0.0005378378,0.00036901946,0.00011435179,0.0002829843],"domain_scores_gemma":[0.9988663,0.000014747514,0.0004225595,0.00048997015,0.00011212121,0.000094297866],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00034077268,0.00021203513,0.00044789608,0.000054794375,0.000084671796,0.000013659863,0.00028771875,0.00027241034,0.000005270163],"category_scores_gemma":[0.00011699688,0.00016256211,0.00013171228,0.00014054718,0.00027298264,0.0000030113943,0.00010317204,0.00012104205,7.407402e-7],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00006262346,0.00006856376,0.0072214915,0.00009389655,0.000037727696,0.0000023602977,0.00008432144,0.00027685208,0.99028003,0.0015821885,0.000025157038,0.00026480155],"study_design_scores_gemma":[0.0003417899,0.000605937,0.0015687683,0.000059502672,0.000025006255,0.000052697254,0.00015001159,0.00034695555,0.99546695,0.00024545018,0.0009642746,0.00017266137],"about_ca_topic_score_codex":0.000106450236,"about_ca_topic_score_gemma":0.000011842622,"teacher_disagreement_score":0.013012353,"about_ca_system_score_codex":0.0000131131765,"about_ca_system_score_gemma":0.00010383823,"threshold_uncertainty_score":0.66290903},"labels":[],"label_agreement":null},{"id":"W2166086677","doi":"10.1002/msb.134974","title":"The functional diversity of protein lysine methylation","year":2014,"lang":"en","type":"review","venue":"Molecular Systems Biology","topic":"Cancer-related gene regulation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":268,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Ottawa","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Lysine; Methylation; Biology; Acetylation; Histone; Biochemistry; Computational biology; Ubiquitin; Phosphorylation; Histone H3; Amino acid; Gene","score_opus":0.020483292916592937,"score_gpt":0.27589168476995535,"score_spread":0.2554083918533624,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2166086677","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.0004653061,0.9746657,0.02274397,0.000019349758,0.00079441763,0.0010633885,0.000041776806,0.000012892489,0.00019321483],"genre_scores_gemma":[0.01839982,0.9780058,0.000049552425,0.00000880211,0.0006280828,0.00021095903,0.0017017779,0.000056335906,0.00093886635],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.9975978,0.0008597756,0.0006365101,0.000495574,0.00016637184,0.00024396443],"domain_scores_gemma":[0.9982495,0.000039863127,0.00077580643,0.0006830688,0.00020183055,0.00004995544],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006444054,0.00031547513,0.0008186017,0.00009893383,0.0002043962,0.000016033715,0.00033590596,0.00079615973,0.0000043894765],"category_scores_gemma":[0.00013077837,0.00022594267,0.00047332665,0.00019459933,0.00017130628,0.0000016833234,0.0003910632,0.0001668795,0.000015875215],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000102830905,0.000056870467,0.000032897453,0.006587735,0.002231502,0.0000025533402,0.000011410948,0.000587083,0.062025294,0.0056998343,0.0013484459,0.9213135],"study_design_scores_gemma":[0.00018300088,0.00016426989,0.000006697914,0.0005517186,0.0002869717,0.000024323299,0.0000024695337,0.000049229395,0.0011456582,0.000044648896,0.99730897,0.00023204272],"about_ca_topic_score_codex":0.00007187225,"about_ca_topic_score_gemma":0.000016686767,"teacher_disagreement_score":0.99596053,"about_ca_system_score_codex":0.00006772412,"about_ca_system_score_gemma":0.00018274588,"threshold_uncertainty_score":0.92136747},"labels":[],"label_agreement":null},{"id":"W2167608258","doi":"10.1038/msb.2010.97","title":"Chromatin regulators shape the genotype–phenotype map","year":2010,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"Plant Molecular Biology Research","field":"Agricultural and Biological Sciences","cited_by":7,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":true,"ca_institutions":"Université Laval","funders":"","keywords":"Section (typography); Humanities; Library science; Biology; Philosophy; Computer science","score_opus":0.014779605768474553,"score_gpt":0.22615762494786482,"score_spread":0.21137801917939025,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2167608258","genre_codex":"commentary","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"commentary","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.34134609,0.007071264,0.000043197713,0.64192855,0.0042697857,0.0023485231,0.00086446246,0.00034621055,0.00178193],"genre_scores_gemma":[0.52336246,0.00009227106,0.00010498159,0.44649297,0.012533286,0.00060964475,0.011643761,0.000040661045,0.0051199677],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9949097,0.0016837636,0.0006167432,0.0011223551,0.00043571022,0.0012317379],"domain_scores_gemma":[0.9983117,0.00039348792,0.00040254317,0.0005680664,0.00019890687,0.00012531871],"candidate_categories":["research_integrity","insufficient_payload"],"consensus_categories":["research_integrity"],"category_scores_codex":[0.00084163627,0.0006484584,0.0007977887,0.000058359066,0.0004007876,0.00016298522,0.0020837055,0.005064625,0.0005316825],"category_scores_gemma":[0.00017038858,0.00021586572,0.00036165753,0.00036180174,0.0005805263,0.000027439084,0.00050103257,0.0046064276,0.00112176],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000114044105,0.000012947393,0.00017416345,0.000041775733,0.00014049908,0.00040575158,0.000009904216,7.4231923e-7,0.6698036,0.00026244868,0.3265252,0.002611564],"study_design_scores_gemma":[0.00009677325,0.00025888183,0.000683155,0.000040029066,0.000047557904,0.0002402224,0.000010825269,0.00011522251,0.0018416737,0.00025220573,0.9958719,0.000541552],"about_ca_topic_score_codex":0.000900502,"about_ca_topic_score_gemma":0.00021652898,"teacher_disagreement_score":0.6693467,"about_ca_system_score_codex":0.000060363323,"about_ca_system_score_gemma":0.000065738335,"threshold_uncertainty_score":0.99965596},"labels":[],"label_agreement":null},{"id":"W2170310316","doi":"10.1038/msb.2013.23","title":"A global S. cerevisiae small ubiquitin‐related modifier (SUMO) system interactome","year":2013,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":48,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University Health Network; University of Toronto; Ontario Institute for Cancer Research","funders":"Canadian Institutes of Health Research","keywords":"Interactome; Biology; Nucleoporin; Computational biology; Saccharomyces cerevisiae; Budding yeast; Ubiquitin; Tandem affinity purification; Ribosomal protein; SUMO protein; Proteases; Ubiquitin-Protein Ligases; Protein–protein interaction; Proteomics; Yeast; Biochemistry; Ubiquitin ligase; Ribosome; Affinity chromatography; Nuclear protein; Enzyme; RNA; Transcription factor; Gene","score_opus":0.009979955803157041,"score_gpt":0.23390394622504954,"score_spread":0.22392399042189248,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2170310316","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9577539,0.0058079595,0.012961808,0.00014007615,0.001204757,0.001465519,0.00012467557,0.00016500635,0.020376308],"genre_scores_gemma":[0.9974348,0.00003171607,0.00026957007,0.00030652108,0.0002676204,0.00046941784,0.0004265131,0.000058894144,0.00073495525],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99684703,0.00062107045,0.00072986016,0.00088795973,0.00014390175,0.00077017664],"domain_scores_gemma":[0.99828035,0.000018097095,0.00029315206,0.000874256,0.0002619949,0.00027213467],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00037265872,0.0004705612,0.00054787146,0.00009220733,0.000112161826,0.00011355341,0.0005915232,0.0007153531,0.00008755515],"category_scores_gemma":[0.000096496944,0.00042138775,0.00028168445,0.00023848347,0.00014472181,0.000007842609,0.00033481017,0.00019262306,0.00066831324],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000057304893,0.0000913634,0.0054230304,0.00035432054,0.0004540765,0.00007259757,0.00006134322,0.00014136439,0.9649749,0.02267558,0.0015660009,0.0041281665],"study_design_scores_gemma":[0.0112140635,0.0061597815,0.010301517,0.0017155232,0.0005382215,0.007326069,0.0025822197,0.014158495,0.6491437,0.002354594,0.28677344,0.0077323667],"about_ca_topic_score_codex":0.00074427767,"about_ca_topic_score_gemma":0.000015442944,"teacher_disagreement_score":0.31583115,"about_ca_system_score_codex":0.00010249253,"about_ca_system_score_gemma":0.00009841554,"threshold_uncertainty_score":0.9998238},"labels":[],"label_agreement":null},{"id":"W2171510167","doi":"10.1038/msb.2009.26","title":"An atlas of chaperone–protein interactions in Saccharomyces cerevisiae: implications to protein folding pathways in the cell","year":2009,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Heat shock proteins research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":223,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canada Research Chairs; University of Toronto","funders":"Canadian Institutes of Health Research; Genome Canada","keywords":"Chaperone (clinical); Co-chaperone; Saccharomyces cerevisiae; Biology; Protein folding; Hsp90; HSP60; Heat shock protein; Protein–protein interaction; Protein aggregation; Proteostasis; Cell biology; Yeast; Hsp70; Computational biology; Biochemistry; Gene","score_opus":0.023953995730887793,"score_gpt":0.3210421435907917,"score_spread":0.2970881478599039,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2171510167","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98865765,0.00079280627,0.006448616,0.0009038349,0.000033051547,0.0023006143,0.000030710842,0.000011223174,0.00082151167],"genre_scores_gemma":[0.998378,0.000012387801,0.00043882537,0.00013691543,0.00006851806,0.00081982126,0.00008158837,0.000019839546,0.000044134547],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99751925,0.00081145327,0.00052993704,0.0005470817,0.00013190976,0.00046036346],"domain_scores_gemma":[0.9988146,0.000017679582,0.00010772386,0.0008596773,0.00010036044,0.000099969955],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007404398,0.00020294977,0.0002934646,0.00027309105,0.00006493813,0.0000341571,0.0006769516,0.00018362678,0.0000070973874],"category_scores_gemma":[0.00013776019,0.0001662689,0.000078899844,0.00046910846,0.000052088206,0.0000098681885,0.00009004503,0.00023558877,0.000013555932],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000036066907,0.0002008083,0.0008578293,0.0000356279,0.0000076034776,0.000008180937,0.00017487942,0.00017258713,0.9942149,0.002291591,0.0000198368,0.001980085],"study_design_scores_gemma":[0.00050968654,0.0014422102,0.004111681,0.00011779016,0.0000041682033,0.000027460463,0.0003465697,0.00015554712,0.9885421,0.00029384354,0.004178197,0.0002707855],"about_ca_topic_score_codex":0.00054394716,"about_ca_topic_score_gemma":0.00019071205,"teacher_disagreement_score":0.009720338,"about_ca_system_score_codex":0.000053112413,"about_ca_system_score_gemma":0.00010941269,"threshold_uncertainty_score":0.67802495},"labels":[],"label_agreement":null},{"id":"W2171911221","doi":"10.1038/msb.2011.52","title":"Metabolic network reconstruction of Chlamydomonas offers insight into light‐driven algal metabolism","year":2011,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":298,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Office of Science; New York University Abu Dhabi; Biological and Environmental Research; Jane Coffin Childs Memorial Fund for Medical Research; York University; U.S. Department of Energy; National Science Foundation","keywords":"Biology; Metabolic network; Chlamydomonas reinhardtii; Chlamydomonas; Computational biology; Systems biology; Model organism; Phototaxis; Metabolic flux analysis; Metabolomics; Metabolic engineering; Flux balance analysis; Organism; In silico; Bioinformatics; Metabolism; Genetics; Gene","score_opus":0.00796307899479025,"score_gpt":0.19966030228130122,"score_spread":0.19169722328651095,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2171911221","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9578646,0.018881157,0.017268823,0.000036940277,0.0038668327,0.0004273085,0.000014672226,0.000052888347,0.001586792],"genre_scores_gemma":[0.99533165,0.00043884624,0.0029877229,0.0000444987,0.00089841976,0.00004675795,0.000087484135,0.00004112397,0.00012349841],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99816686,0.00026883837,0.00053301366,0.00056343933,0.000091253976,0.0003765923],"domain_scores_gemma":[0.9988721,0.0000026190778,0.0002638233,0.00058128993,0.00018061766,0.000099574],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00031109925,0.0002942498,0.0005235031,0.00013704007,0.0000670875,0.000010024998,0.00027287402,0.0004148161,0.000015753913],"category_scores_gemma":[0.000069020956,0.00026183884,0.00019714927,0.0002627328,0.0001438941,0.0000074158993,0.000110160196,0.00013912811,0.000013123652],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000069825626,0.00003813673,0.00079856126,0.000039611383,0.00028687567,0.0000027838807,0.00013714244,0.00020770138,0.99120426,0.004256087,0.00012494923,0.0028340695],"study_design_scores_gemma":[0.0004369844,0.0001738939,0.0012261859,0.000030362304,0.00010616411,0.00014438662,0.000027324297,0.00006689785,0.9126558,0.00010202704,0.08470858,0.00032141106],"about_ca_topic_score_codex":0.00038493855,"about_ca_topic_score_gemma":0.000020040823,"teacher_disagreement_score":0.08458363,"about_ca_system_score_codex":0.000010077255,"about_ca_system_score_gemma":0.00005301937,"threshold_uncertainty_score":0.9999834},"labels":[],"label_agreement":null},{"id":"W2175500613","doi":"10.15252/msb.20156444","title":"Evolutionary rescue by compensatory mutations is constrained by genomic and environmental backgrounds","year":2015,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":69,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Natural Sciences and Engineering Research Council of Canada; Université Laval","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research","keywords":"Biology; Genetics; Computational biology; Mutation; Genomics; Evolutionary biology; Genome; Gene","score_opus":0.007024764258542143,"score_gpt":0.22351958116308004,"score_spread":0.2164948169045379,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2175500613","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95816755,0.019432249,0.019904569,0.0002105543,0.000256835,0.0002927991,0.00096383586,0.000020376547,0.0007512078],"genre_scores_gemma":[0.99419475,0.00013608932,0.0003257284,0.00055996457,0.000053780903,0.000032484513,0.0036124003,0.000025142634,0.0010596904],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9987129,0.00021410835,0.0002714464,0.00044387276,0.000092647606,0.00026501826],"domain_scores_gemma":[0.9993919,0.0000074881186,0.00007713922,0.00029063062,0.000034044544,0.0001987748],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00016051493,0.00019440794,0.0001896934,0.000038962102,0.00008310381,0.000018955749,0.00014148415,0.00027791678,0.000013115613],"category_scores_gemma":[0.000018026989,0.00020560347,0.000054637683,0.000039771552,0.00040802537,0.000003003927,0.00011471026,0.00008403812,0.00002866124],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000022767286,0.000048113903,0.004005817,0.000008006796,0.000082225786,0.0000031496454,0.000040166677,0.00011454733,0.964944,0.00039997944,0.030223543,0.000107663735],"study_design_scores_gemma":[0.0074346815,0.0023172833,0.0053572394,0.000030202604,0.00016564385,0.001136292,0.0031488757,0.03285258,0.03302292,0.0005533416,0.9119057,0.002075252],"about_ca_topic_score_codex":0.00008699942,"about_ca_topic_score_gemma":0.000006431882,"teacher_disagreement_score":0.9319211,"about_ca_system_score_codex":0.000059725866,"about_ca_system_score_gemma":0.00008305435,"threshold_uncertainty_score":0.83842665},"labels":[],"label_agreement":null},{"id":"W2211041313","doi":"10.15252/msb.20156351","title":"Fundamentals of protein interaction network mapping","year":2015,"lang":"en","type":"review","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":305,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Princess Margaret Cancer Centre; Discovery Centre; University Health Network; University of Toronto","funders":"Canada Foundation for Innovation; Ontario Genomics Institute; Ontario Genomics; Natural Sciences and Engineering Research Council of Canada; International Business Machines Corporation; Cystic Fibrosis Foundation; University Health Network; U.S. Department of Defense","keywords":"IBM; Library science; Sociology; Computer science","score_opus":0.04150111530243461,"score_gpt":0.3155086554196244,"score_spread":0.2740075401171898,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2211041313","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.00010670871,0.9802636,0.01511911,0.000004087122,0.0010826209,0.0013988783,0.00007712732,0.000014056933,0.0019338471],"genre_scores_gemma":[0.0038800072,0.99155265,0.0006532816,0.00003904919,0.00090503757,0.00033379215,0.0020424882,0.000089865156,0.0005038397],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.9973921,0.00048927154,0.0011303191,0.00045152992,0.00010900399,0.00042777142],"domain_scores_gemma":[0.99800265,0.000012600082,0.0010675878,0.00067934743,0.0001255274,0.00011226263],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0007905791,0.00045016722,0.0014576038,0.000113188566,0.0000433644,0.000030066769,0.00041448255,0.00095463253,0.0000067799942],"category_scores_gemma":[0.000030508598,0.00038130995,0.0004411592,0.00018488395,0.00010050977,0.000002748004,0.00032042144,0.0002610004,0.00003679442],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000037247624,0.00007409377,0.000010838758,0.0153581295,0.0014929262,0.000014817164,0.00004205034,0.00027592218,0.0038353857,0.0029180013,0.006120238,0.9698203],"study_design_scores_gemma":[0.00016827541,0.00023889916,1.15197956e-7,0.0031474985,0.00012107307,0.00009569363,0.000029746116,0.000058856232,0.000037122332,0.00010219248,0.9956396,0.0003608903],"about_ca_topic_score_codex":0.000029415509,"about_ca_topic_score_gemma":0.0000029990288,"teacher_disagreement_score":0.9895194,"about_ca_system_score_codex":0.00006688207,"about_ca_system_score_gemma":0.00024445457,"threshold_uncertainty_score":0.99986386},"labels":[],"label_agreement":null},{"id":"W2252575065","doi":"10.15252/msb.20156492","title":"Hierarchical folding and reorganization of chromosomes are linked to transcriptional changes in cellular differentiation","year":2015,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":397,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McGill University; McGill University Health Centre","funders":"Biotechnology and Biological Sciences Research Council; RIKEN; Medical Research Council; Canadian Institutes of Health Research; Ministry of Education, Culture, Sports, Science and Technology","keywords":"Epigenetics; Chromatin; Library science; Biology; Humanities; Genetics; DNA; Computer science; Art; Gene","score_opus":0.011275535391579068,"score_gpt":0.2196581492160791,"score_spread":0.20838261382450002,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2252575065","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9716958,0.0012436771,0.026352618,0.00021465094,0.00019102522,0.00023606734,0.000027895561,0.000005991931,0.0000323009],"genre_scores_gemma":[0.99907464,0.000045817524,0.000399394,0.00006054662,0.000075763455,0.000022729568,0.00027822048,0.000017256527,0.000025605577],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9991636,0.0001287073,0.00022300748,0.00026417154,0.000069258494,0.0001512458],"domain_scores_gemma":[0.99957323,0.0000053047343,0.00009529701,0.0001574655,0.00008869995,0.00007999014],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00017712248,0.000114379196,0.00019921183,0.00010086461,0.00001837022,0.000011635903,0.00009660917,0.00019061423,0.0000014075537],"category_scores_gemma":[0.000065148655,0.000113942915,0.000025221925,0.00010226544,0.000037301754,0.0000017334702,0.00006305072,0.00005003923,0.0000010244809],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000022214163,0.000027272794,0.015484909,0.000041215902,0.000021639755,0.000002517855,0.00013206355,0.00036257535,0.9820183,0.0017177145,0.00001311134,0.00015647023],"study_design_scores_gemma":[0.0051053786,0.002760335,0.12405829,0.00030491824,0.000095011506,0.00010728472,0.001224771,0.018193537,0.8386675,0.0019461076,0.006221145,0.0013156986],"about_ca_topic_score_codex":0.000033996574,"about_ca_topic_score_gemma":0.00008276033,"teacher_disagreement_score":0.14335078,"about_ca_system_score_codex":0.000022712557,"about_ca_system_score_gemma":0.000031426578,"threshold_uncertainty_score":0.4646457},"labels":[],"label_agreement":null},{"id":"W2293355590","doi":"10.15252/msb.20156506","title":"Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility","year":2016,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":15,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital","funders":"National Center for Advancing Translational Sciences; National Center for Research Resources; National Institute of General Medical Sciences; National Institutes of Health; National Cancer Institute; National Human Genome Research Institute; University of Utah; Brigham Young University","keywords":"Biology; Breast cancer; Signal transduction; Genetics; Computational biology; Cancer; Bioinformatics","score_opus":0.03349506522941321,"score_gpt":0.30743743721306827,"score_spread":0.27394237198365506,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2293355590","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9384548,0.0012931225,0.058644336,0.0001408427,0.0004766962,0.00027387898,0.00041678688,0.0000269692,0.0002725713],"genre_scores_gemma":[0.9988513,0.000117343385,0.0002610653,0.000117185205,0.00021502149,0.0000698523,0.00011503501,0.00003702735,0.00021619473],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99798995,0.00034567295,0.00043986022,0.0006879071,0.0001018028,0.0004347951],"domain_scores_gemma":[0.9989049,0.000027642418,0.0002125566,0.0005240418,0.0002140383,0.00011681793],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00029887736,0.00030744393,0.00037348628,0.00006679095,0.000108135646,0.000030389167,0.00031762032,0.00033350821,0.000020619353],"category_scores_gemma":[0.00006455956,0.00020295681,0.00020167696,0.000105621555,0.0001854456,0.0000044813323,0.00016168025,0.000096729156,0.00001289823],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000050035494,0.00003079673,0.006078882,0.00002588268,0.0001838368,0.00000770372,0.000037131584,0.00018083458,0.9904188,0.0006805399,0.00010886546,0.0021966994],"study_design_scores_gemma":[0.0033183836,0.0012738903,0.010883028,0.0004636008,0.00024507922,0.00031645657,0.0013859267,0.0021665248,0.9733028,0.0018424767,0.0027018178,0.0021000463],"about_ca_topic_score_codex":0.00038841827,"about_ca_topic_score_gemma":0.00017034955,"teacher_disagreement_score":0.060396478,"about_ca_system_score_codex":0.00010354423,"about_ca_system_score_gemma":0.00015971677,"threshold_uncertainty_score":0.82763386},"labels":[],"label_agreement":null},{"id":"W2338649679","doi":"10.15252/msb.20156484","title":"An inter‐species protein–protein interaction network across vast evolutionary distance","year":2016,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":59,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; McGill University; Lunenfeld-Tanenbaum Research Institute; University of Toronto; Ontario Institute for Cancer Research","funders":"National Human Genome Research Institute; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Krembil Foundation; Canada Excellence Research Chairs, Government of Canada; Fonds De La Recherche Scientifique - FNRS; Canada Foundation for Innovation; National Institutes of Health; National Science Foundation","keywords":"Interactome; Biology; Proteome; Computational biology; Interaction network; Protein–protein interaction; Systems biology; Biological network; Human proteome project; Evolutionary biology; Protein Interaction Networks; Proteomics; Bioinformatics; Genetics; Gene","score_opus":0.007434453048901947,"score_gpt":0.24411633945983027,"score_spread":0.23668188641092833,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2338649679","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.47194687,0.001254124,0.5243178,0.0001951992,0.0007965001,0.00058603636,0.00010041263,0.00004275614,0.0007603019],"genre_scores_gemma":[0.99616855,0.000026344027,0.0006951551,0.00013610687,0.0008566468,0.00020039453,0.00023266148,0.000037372374,0.0016467699],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9980446,0.0002459101,0.0004959049,0.0005147376,0.00009530721,0.0006035196],"domain_scores_gemma":[0.9987379,0.00000979362,0.00026009805,0.00072217843,0.00013631498,0.000133747],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003565082,0.00028508232,0.00027980108,0.000031902993,0.00016266415,0.00005768321,0.0003919545,0.00038400746,0.000020505728],"category_scores_gemma":[0.00003682678,0.00020933263,0.00013114116,0.000095652205,0.00021458617,0.00001676306,0.00019036431,0.00012912681,0.000051660296],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00015503675,0.000048822632,0.0011436398,0.00003433315,0.00009231761,0.000007784103,0.00003884036,0.00022520752,0.98232806,0.008525214,0.0014783167,0.005922406],"study_design_scores_gemma":[0.0029873785,0.0033344137,0.0022313914,0.0009007927,0.00004572833,0.0003088086,0.0006417558,0.003972176,0.10263046,0.005036386,0.8756839,0.0022268011],"about_ca_topic_score_codex":0.000038231916,"about_ca_topic_score_gemma":0.00005153187,"teacher_disagreement_score":0.8796976,"about_ca_system_score_codex":0.00006735761,"about_ca_system_score_gemma":0.00004790193,"threshold_uncertainty_score":0.8536337},"labels":[],"label_agreement":null},{"id":"W2339738230","doi":"10.15252/msb.20156660","title":"Pooled‐matrix protein interaction screens using Barcode Fusion Genetics","year":2016,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":128,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; Lunenfeld-Tanenbaum Research Institute; Ontario Institute for Cancer Research; University of Toronto","funders":"Japan Science and Technology Agency; Canadian Institutes of Health Research; Life Science Foundation of Japan; National Human Genome Research Institute; Nestlé Nutrition Council, Japan; Astellas Foundation for Research on Metabolic Disorders; Krembil Foundation; Canada Excellence Research Chairs, Government of Canada; Japan Society for the Promotion of Science London; Avon Foundation for Women","keywords":"Barcode; Biology; Computational biology; Genetics; Fusion protein; Computer science; Gene; Recombinant DNA","score_opus":0.022322106473433693,"score_gpt":0.31878645561905394,"score_spread":0.29646434914562025,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2339738230","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9078314,0.0031988837,0.08732007,0.00017457308,0.00039715925,0.00055413047,0.000054926095,0.000024002456,0.00044487254],"genre_scores_gemma":[0.99712753,0.00012871937,0.0009942566,0.000055016284,0.0003854952,0.00005770961,0.00006561763,0.000050169674,0.0011355085],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99787885,0.0004155141,0.00036948768,0.0006195361,0.00018639692,0.0005302096],"domain_scores_gemma":[0.9988827,0.000013401734,0.00013170435,0.00058707007,0.00021891647,0.00016621141],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00025876536,0.00025634846,0.00024072993,0.00013057403,0.0001077891,0.000035966943,0.00032839016,0.00037253453,0.00003115505],"category_scores_gemma":[0.00010780264,0.00018455651,0.00013314057,0.00012954754,0.0001374182,0.0000043106857,0.0003329285,0.00011552663,0.00008279357],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000971735,0.000037466696,0.0010337429,0.000030978637,0.00007849239,0.000014763717,0.000006379455,0.00020458456,0.99490124,0.00032768265,0.000114588154,0.003152892],"study_design_scores_gemma":[0.00067942525,0.0005610264,0.00013008474,0.00008965364,0.000023863951,0.00010803159,0.000030097157,0.0014802596,0.9692002,0.000076228556,0.02729173,0.00032940326],"about_ca_topic_score_codex":0.00010029035,"about_ca_topic_score_gemma":0.000016654103,"teacher_disagreement_score":0.08929612,"about_ca_system_score_codex":0.000051837415,"about_ca_system_score_gemma":0.000108908804,"threshold_uncertainty_score":0.75259966},"labels":[],"label_agreement":null},{"id":"W2552320392","doi":"10.15252/msb.20167216","title":"Dynamical compensation in physiological circuits","year":2016,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":103,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Azrieli Foundation","keywords":"Biology; Compensation (psychology); Computational biology; Neuroscience","score_opus":0.011335472549584929,"score_gpt":0.2391861055719336,"score_spread":0.22785063302234868,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2552320392","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9636166,0.0010202655,0.034462687,0.00015415155,0.00021539394,0.00020178466,0.000009762496,0.000019968144,0.00029937664],"genre_scores_gemma":[0.9993034,0.000047103287,0.00005563978,0.00010635791,0.00015519667,0.000050892486,0.00010302575,0.000020081445,0.00015828967],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9981844,0.00046049553,0.00034181628,0.000558832,0.00008577367,0.0003687285],"domain_scores_gemma":[0.9992849,0.000015768936,0.000103307844,0.00045368084,0.00006274209,0.00007959156],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00026355422,0.00019002483,0.00030045834,0.00009220877,0.000031219908,0.000009435636,0.00023473022,0.00035447214,0.00001555739],"category_scores_gemma":[0.000079005535,0.00013175227,0.0001280702,0.0001517373,0.000133069,0.0000022210568,0.000109793815,0.00006147807,0.0000509625],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000012412848,0.000033486118,0.01433295,0.0000058021024,0.00005340932,0.000010361651,0.0000032594567,0.00034713172,0.98144674,0.0016999636,0.00014588828,0.0019085882],"study_design_scores_gemma":[0.011011237,0.0034502966,0.34148866,0.0003818954,0.00022879016,0.0004939426,0.0001740755,0.011980457,0.5540133,0.0038322893,0.068659455,0.004285585],"about_ca_topic_score_codex":0.000026690514,"about_ca_topic_score_gemma":0.000030000883,"teacher_disagreement_score":0.42743343,"about_ca_system_score_codex":0.00004695763,"about_ca_system_score_gemma":0.00003590215,"threshold_uncertainty_score":0.5372702},"labels":[],"label_agreement":null},{"id":"W2566177767","doi":"10.15252/msb.20167381","title":"Diverse mechanisms of metaeffector activity in an intracellular bacterial pathogen, Legionella pneumophila","year":2016,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Legionella and Acanthamoeba research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":145,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Public Health Ontario; University of Toronto","funders":"Argonne National Laboratory; Biological and Environmental Research; National Institute of General Medical Sciences; Canadian Institutes of Health Research; National Institutes of Health; Canada Foundation for Innovation; Office of Extramural Research, National Institutes of Health; U.S. Department of Energy","keywords":"Effector; Legionella pneumophila; Biology; Cell biology; Secretion; Intracellular; Legionella; Intracellular parasite; Computational biology; Microbiology; Genetics; Bacteria; Biochemistry","score_opus":0.015776870594432165,"score_gpt":0.26302364947110835,"score_spread":0.24724677887667618,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2566177767","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.97363204,0.00034395023,0.024727559,0.00009938816,0.00054325996,0.00046868587,0.00009762193,0.000013762394,0.000073733725],"genre_scores_gemma":[0.9993307,0.00007195885,0.000096923635,0.000025005076,0.00019273296,0.00006229587,0.00009037876,0.000034207555,0.00009577596],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99757874,0.0008173158,0.00034101884,0.0006373478,0.0001588393,0.00046672876],"domain_scores_gemma":[0.9989002,0.000029047276,0.00016530347,0.00063943485,0.00011970397,0.00014631018],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005878879,0.00025207587,0.0004228835,0.00015436421,0.00004262229,0.000016482643,0.00038642815,0.00041948483,0.000012627373],"category_scores_gemma":[0.0000908267,0.0001812921,0.00014420657,0.00014036424,0.00018669831,0.00001079709,0.00021958795,0.00010149768,0.000016832546],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0002707518,0.0001413596,0.0017463303,0.000038879647,0.00006268096,0.00006568834,0.000015384434,0.000009955245,0.99418896,0.001791355,0.000026026682,0.0016426428],"study_design_scores_gemma":[0.001283616,0.000909131,0.0006976215,0.000033341017,0.000016595433,0.00002992953,0.00003155076,0.000052600906,0.99486065,0.00020551297,0.0016149966,0.0002644375],"about_ca_topic_score_codex":0.00022577119,"about_ca_topic_score_gemma":0.00006860683,"teacher_disagreement_score":0.025698682,"about_ca_system_score_codex":0.000034998957,"about_ca_system_score_gemma":0.000094586445,"threshold_uncertainty_score":0.7392877},"labels":[],"label_agreement":null},{"id":"W2576030387","doi":"10.15252/msb.20167067","title":"Interactome disassembly during apoptosis occurs independent of caspase cleavage","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cell death mechanisms and regulation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":60,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"British Columbia Knowledge Development Fund; National Health and Medical Research Council; Medical Research Council; Canadian Institutes of Health Research; Michael Smith Health Research BC; Canada Excellence Research Chairs, Government of Canada; Canada Foundation for Innovation","keywords":"Interactome; Biology; Apoptosis; Caspase; Cleavage (geology); Cell biology; Caspase 3; Computational biology; Caspase 7; Bioinformatics; Biochemistry; Programmed cell death; Gene","score_opus":0.009634383851861399,"score_gpt":0.26841131423776243,"score_spread":0.25877693038590105,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2576030387","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9929073,0.0006844466,0.0043234383,0.000041753156,0.0008574913,0.0002739069,0.00003197499,0.000011936897,0.00086777186],"genre_scores_gemma":[0.9992663,0.00007988802,0.000078726705,0.000020069241,0.00014627763,0.00002976793,0.00010719035,0.000027543827,0.0002441964],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99873334,0.00011452749,0.00034414098,0.0004234976,0.00010702479,0.0002774877],"domain_scores_gemma":[0.9985154,0.000005595815,0.00039228908,0.00091658946,0.000083158026,0.00008696122],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001943542,0.00019593442,0.00028616065,0.00007372819,0.00017211211,0.000048268597,0.00039764523,0.0003129723,0.0000072980124],"category_scores_gemma":[0.000079594516,0.00017490014,0.00015461071,0.000028671997,0.000109754474,0.000006456469,0.00028977342,0.00008162646,0.000008994208],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000066855566,0.00004177157,0.0034300624,0.00006670496,0.00009609801,0.000011841657,0.000026914637,0.0000423989,0.9943027,0.0010490663,0.000032606258,0.00083299784],"study_design_scores_gemma":[0.0006598386,0.00023629195,0.01078202,0.00004409394,0.000028931941,0.00004727614,0.000063521016,0.00008532171,0.98670554,0.00004211226,0.0010799983,0.00022503638],"about_ca_topic_score_codex":0.00035561938,"about_ca_topic_score_gemma":0.000025960277,"teacher_disagreement_score":0.0075971247,"about_ca_system_score_codex":0.000019962321,"about_ca_system_score_gemma":0.000029339606,"threshold_uncertainty_score":0.7132221},"labels":[],"label_agreement":null},{"id":"W2602591433","doi":"10.15252/msb.20167430","title":"Systematic protein–protein interaction mapping for clinically relevant human GPCRs","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Receptor Mechanisms and Signaling","field":"Biochemistry, Genetics and Molecular Biology","cited_by":70,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; University of Regina; Princess Margaret Cancer Centre; Public Health Ontario; Institute for Research in Immunology and Cancer; University Health Network; University of Toronto","funders":"H2020 European Research Council; Instituto de Salud Carlos III; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Université Paris Descartes; Ministarstvo Prosvete, Nauke i Tehnološkog Razvoja; American Roentgen Ray Society; Ministerio de Economía y Competitividad; Generalitat de Catalunya; Institut National de la Santé et de la Recherche Médicale; Agence Nationale de la Recherche; International Business Machines Corporation; Institució Catalana de Recerca i Estudis Avançats; Saskatchewan Health Research Foundation; Canadian Institutes of Health Research; Fonds Wetenschappelijk Onderzoek; Canada Foundation for Innovation; Ontario Genomics Institute; Fondation pour la Recherche Médicale; Canadian Cancer Society; University Health Network; Cystic Fibrosis Canada; National Science Foundation; Fundació la Marató de TV3; Association pour la Recherche sur le Cancer","keywords":"Interactome; G protein-coupled receptor; Biology; Druggability; Computational biology; Proteomics; Membrane protein; Integral membrane protein; Protein–protein interaction; Signal transduction; Cell biology; Biochemistry; Membrane","score_opus":0.028854763014913788,"score_gpt":0.3200606568607255,"score_spread":0.2912058938458117,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2602591433","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.76884556,0.0007953558,0.22549373,0.00013186193,0.0009530859,0.0031326315,0.000021469456,0.000037874106,0.0005884483],"genre_scores_gemma":[0.995393,0.000009503028,0.0018015656,0.000066691624,0.0004128476,0.0011407874,0.00012692764,0.000056442335,0.0009922674],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9975226,0.00034887838,0.00090631703,0.0006793373,0.00011637112,0.0004264962],"domain_scores_gemma":[0.9976283,0.000020134794,0.00091466075,0.0011153105,0.00021310947,0.00010851765],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0012294097,0.00028994962,0.00057185214,0.00007492819,0.00052339514,0.0001830391,0.00060863973,0.0004642645,0.0000094122315],"category_scores_gemma":[0.00068711437,0.00025254025,0.00030796297,0.000027168948,0.00009552085,0.000008985066,0.000190126,0.00015143462,0.000019683976],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000050386938,0.000032080043,0.000054169144,0.0019777375,0.00018421962,0.000007027229,0.00002115531,0.000017297358,0.99220794,0.005269594,0.000052412986,0.00012596394],"study_design_scores_gemma":[0.0016747547,0.00196625,0.00002800998,0.0041366303,0.00008519894,0.00006461867,0.00033308766,0.0011462367,0.9798572,0.0013194173,0.008573543,0.0008150235],"about_ca_topic_score_codex":0.000095790645,"about_ca_topic_score_gemma":0.000009726826,"teacher_disagreement_score":0.22654742,"about_ca_system_score_codex":0.000034003122,"about_ca_system_score_gemma":0.000050579416,"threshold_uncertainty_score":0.99999267},"labels":[],"label_agreement":null},{"id":"W2606209624","doi":"10.15252/msb.20177551","title":"Automated analysis of high‐content microscopy data with deep learning","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cell Image Analysis Techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":298,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; University of Toronto","funders":"Canadian Institutes of Health Research; National Institutes of Health; Canada Foundation for Innovation; Connaught Fund; National Human Genome Research Institute; University of Toronto; Ontario Ministry of Research, Innovation and Science; Canadian Institute for Advanced Research","keywords":"Deep learning; Convolutional neural network; Artificial intelligence; High-content screening; Computer science; Microscopy; Pattern recognition (psychology); Machine learning; Biology; Artificial neural network; Cell; Pathology","score_opus":0.017196695993249307,"score_gpt":0.30377109558160975,"score_spread":0.28657439958836045,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2606209624","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.90192324,0.0016394889,0.09552051,0.000033899916,0.00004607433,0.00022618969,0.00003794045,0.00008531872,0.00048733168],"genre_scores_gemma":[0.99539727,0.00010851152,0.001977165,0.000039534367,0.0000362275,0.00002366626,0.0021606279,0.000029158742,0.00022784877],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9982236,0.00024608593,0.00039677415,0.00073575316,0.00011225808,0.0002854972],"domain_scores_gemma":[0.9961484,0.000011043391,0.0006136279,0.002925085,0.00023506086,0.00006676635],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00042528508,0.0002242383,0.00061166,0.0002095925,0.00015872372,0.0000761851,0.0012119258,0.0002429388,0.000008023637],"category_scores_gemma":[0.00020709717,0.00018467983,0.00014702538,0.00017957328,0.00023169525,0.000008547131,0.0006476746,0.00010789038,0.0000038976204],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000048660855,0.00003961872,0.035329845,0.000020906838,0.00295311,0.000022113907,0.0000090758285,0.0004176884,0.9603964,0.00008287449,0.00014297599,0.0005367056],"study_design_scores_gemma":[0.000776203,0.0007100155,0.017927451,0.000041045845,0.0025453386,0.000030460138,0.00008212779,0.031484507,0.93836534,0.0000055288133,0.007493234,0.0005387388],"about_ca_topic_score_codex":0.002216337,"about_ca_topic_score_gemma":0.00044167557,"teacher_disagreement_score":0.09354334,"about_ca_system_score_codex":0.000013870721,"about_ca_system_score_gemma":0.000036897283,"threshold_uncertainty_score":0.7531025},"labels":[],"label_agreement":null},{"id":"W2735884881","doi":"10.15252/msb.20177532","title":"Quantitative analysis of protein interaction network dynamics in yeast","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":48,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; Sinai Health System; Lunenfeld-Tanenbaum Research Institute; University of Toronto","funders":"National Institute of General Medical Sciences; National Institutes of Health; National Human Genome Research Institute; Krembil Foundation; Canada Excellence Research Chairs, Government of Canada","keywords":"Library science; Computer science","score_opus":0.011533139152894414,"score_gpt":0.28067973364550347,"score_spread":0.2691465944926091,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2735884881","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.911939,0.0007007239,0.08328197,0.000049794828,0.0003568968,0.00033297713,0.000054870645,0.000004538057,0.003279203],"genre_scores_gemma":[0.9988289,0.00002086901,0.0006207022,0.000025265852,0.00005472515,0.000034228888,0.00030616962,0.000011306106,0.00009783295],"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.9989576,0.00011947561,0.0004020369,0.00023816836,0.000051776235,0.0002309755],"domain_scores_gemma":[0.9988154,0.000006537671,0.00045824924,0.0006061378,0.0000756847,0.000037998227],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00035927398,0.00013411576,0.0003481466,0.00011981538,0.00007076662,0.00003310863,0.00030300778,0.00023351092,0.00000329187],"category_scores_gemma":[0.00006242949,0.00012687627,0.0001403869,0.00013047415,0.00011514545,0.000004813035,0.00014946416,0.000098883866,0.0000034583275],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0007256414,0.0002158791,0.11703963,0.00020511876,0.004493084,0.00003155746,0.0002114133,0.07654263,0.57815325,0.21285614,0.00031432384,0.009211341],"study_design_scores_gemma":[0.0017828711,0.0015098585,0.031294413,0.0002468563,0.00056923094,0.000021015836,0.0008972217,0.94830555,0.0065841544,0.0018203515,0.005952474,0.0010160191],"about_ca_topic_score_codex":0.00047588817,"about_ca_topic_score_gemma":0.0013075629,"teacher_disagreement_score":0.8717629,"about_ca_system_score_codex":0.00003667457,"about_ca_system_score_gemma":0.00003060117,"threshold_uncertainty_score":0.51738644},"labels":[],"label_agreement":null},{"id":"W2739391656","doi":"10.15252/msb.20167412","title":"Capturing protein communities by structural proteomics in a thermophilic eukaryote","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":157,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"McGill University","funders":"KU Leuven; Universität Heidelberg; Wellcome Trust; Wellcome","keywords":"Eukaryote; Structural biology; Biology; Molecular cell biology; Library science; Cell and molecular biology; Computational biology; Computer science; Genetics; Gene; Plant development; Cell biology","score_opus":0.01164289055199484,"score_gpt":0.2452265013018487,"score_spread":0.23358361074985387,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2739391656","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99285614,0.0048258808,0.00033465208,0.00016322934,0.00024061545,0.0007509972,0.0000662252,0.00000568721,0.00075656007],"genre_scores_gemma":[0.9990811,0.00006919662,0.00019503881,0.00006565704,0.0001027441,0.00020982452,0.0000692929,0.000032523043,0.00017467691],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9987575,0.0002024073,0.00028616417,0.00031765635,0.000060984825,0.000375293],"domain_scores_gemma":[0.9987856,0.00000536424,0.00020497014,0.0008974196,0.00005327941,0.000053340664],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00021920884,0.0002420102,0.00029644178,0.000044781835,0.0002884651,0.0000791415,0.0006285178,0.0002377807,0.0000020601838],"category_scores_gemma":[0.000045308403,0.00021985814,0.00007851614,0.000022054644,0.00025046998,0.0000015125469,0.00040881595,0.0001457739,0.000003621675],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00003347969,0.000011824165,0.019737309,0.000028721133,0.000071637085,0.000006514218,0.00012452921,0.000064248816,0.9791484,0.00043112293,0.000030888797,0.00031133424],"study_design_scores_gemma":[0.0038385459,0.0011724359,0.05409094,0.00019584106,0.00004487471,0.00013997043,0.0011036547,0.0010591941,0.9186381,0.002691843,0.01521195,0.0018126499],"about_ca_topic_score_codex":0.0023518177,"about_ca_topic_score_gemma":0.0003410567,"teacher_disagreement_score":0.06051029,"about_ca_system_score_codex":0.000022381226,"about_ca_system_score_gemma":0.000039967286,"threshold_uncertainty_score":0.8965555},"labels":[],"label_agreement":null},{"id":"W2766854106","doi":"10.15252/msb.20177819","title":"Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in Arabidopsis","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Plant Molecular Biology Research","field":"Agricultural and Biological Sciences","cited_by":154,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Calgary","funders":"Ludwig-Maximilians-Universität München; Deutsche Forschungsgemeinschaft; Max-Planck-Gesellschaft; Queen Mary University of London","keywords":"Biology; Histone deacetylase; Arabidopsis; Histone; Histone deacetylase 5; SAP30; Acetylation; Histone deacetylase 2; HDAC11; Biochemistry; HDAC4; Cell biology; Mutant; Gene","score_opus":0.032457997580979725,"score_gpt":0.28292066205178956,"score_spread":0.25046266447080984,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2766854106","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9953212,0.0006852147,0.00024000184,0.001195723,0.00030146152,0.0009598487,0.0001586609,0.000060826067,0.0010770245],"genre_scores_gemma":[0.9988115,0.00003342963,0.00020548311,0.00009628971,0.0001162788,0.00018561062,0.00026172595,0.000004054194,0.0002856269],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9974482,0.00035028992,0.00043991147,0.00076465023,0.00020067142,0.0007962825],"domain_scores_gemma":[0.9989652,0.00008433119,0.00030606927,0.00037193866,0.00010838211,0.00016409147],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008675994,0.00030213798,0.00051818776,0.00006306785,0.00036693527,0.00013494513,0.0009930551,0.0004468406,0.000024486535],"category_scores_gemma":[0.00040363352,0.00014079071,0.00014253084,0.00021735279,0.00032911164,0.00010115246,0.00028934798,0.0003612161,0.000080782775],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000063303254,0.000094323805,0.03133723,0.000018892004,0.00004045505,0.0001739173,0.000010079755,0.00003327419,0.9657071,0.0014314472,0.000019311934,0.0010706164],"study_design_scores_gemma":[0.0030680723,0.0015177631,0.17140898,0.00026349747,0.000055596785,0.0005248334,0.0002453199,0.0019352477,0.8075416,0.0004580475,0.011191846,0.0017891701],"about_ca_topic_score_codex":0.0037104806,"about_ca_topic_score_gemma":0.0014699638,"teacher_disagreement_score":0.15816551,"about_ca_system_score_codex":0.00012016414,"about_ca_system_score_gemma":0.000048018363,"threshold_uncertainty_score":0.5741279},"labels":[],"label_agreement":null},{"id":"W2774825874","doi":"10.15252/msb.20177739","title":"An integrated computational and experimental study uncovers FUT9 as a metabolic driver of colorectal cancer","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cancer, Hypoxia, and Metabolism","field":"Biochemistry, Genetics and Molecular Biology","cited_by":53,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Saskatchewan Cancer Agency; University of Saskatchewan","funders":"Canadian Institutes of Health Research; Saskatchewan Health Research Foundation","keywords":"Library science; Tel aviv; Cancer; Medicine; Gerontology; Computer science; Internal medicine","score_opus":0.009140836829155943,"score_gpt":0.3019339560995602,"score_spread":0.29279311927040425,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2774825874","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.987105,0.010048847,0.00070615433,0.000016062555,0.001336572,0.00050900166,0.0001028963,0.000010519337,0.00016491995],"genre_scores_gemma":[0.9990761,0.000127489,0.00014743411,0.00006092678,0.00026327363,0.00012000764,0.000118657124,0.00002343406,0.00006265516],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99869597,0.0002286693,0.00026374363,0.00047733812,0.00011409556,0.00022018401],"domain_scores_gemma":[0.9990895,0.000006277656,0.00024501633,0.00040233374,0.0001473242,0.0001095617],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00017790144,0.0002112776,0.00038819484,0.000062797444,0.00015613373,0.000049263912,0.0002947144,0.00015102902,0.000013877925],"category_scores_gemma":[0.000039405953,0.00018962848,0.00007769385,0.000040228733,0.0002869352,0.00000965959,0.00013688041,0.0000759141,0.0000022457984],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00022592096,0.00027618458,0.02136943,0.000010313388,0.00033640984,0.0000063764383,0.00026019418,0.00061315706,0.97519934,0.00064223155,0.00010424832,0.00095619174],"study_design_scores_gemma":[0.008189018,0.0050235884,0.06317311,0.00004419569,0.00029472235,0.00017093794,0.003415984,0.0012784597,0.8532893,0.00008817047,0.064011164,0.0010213217],"about_ca_topic_score_codex":0.0034857043,"about_ca_topic_score_gemma":0.00021321353,"teacher_disagreement_score":0.121910006,"about_ca_system_score_codex":0.00001463914,"about_ca_system_score_gemma":0.00017155622,"threshold_uncertainty_score":0.77328247},"labels":[],"label_agreement":null},{"id":"W2781028774","doi":"10.15252/msb.20177908","title":"A framework for exhaustively mapping functional missense variants","year":2017,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":235,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; Lunenfeld-Tanenbaum Research Institute; University of Toronto; Mount Sinai Hospital","funders":"National Institute of General Medical Sciences; Ontario Ministry of Research and Innovation; National Institutes of Health; Vetenskapsrådet; National Human Genome Research Institute; Canada Excellence Research Chairs, Government of Canada","keywords":"Biology; Missense mutation; Computational biology; Genetics; Evolutionary biology; Mutation; Gene","score_opus":0.04273901756357423,"score_gpt":0.28731576563615663,"score_spread":0.2445767480725824,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2781028774","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.6215778,0.0031682295,0.37172523,0.0002979592,0.0016321895,0.00051402696,0.000108842716,0.000007254972,0.00096846273],"genre_scores_gemma":[0.99270684,0.000064491855,0.0057620164,0.00019902729,0.00063088007,0.00016883932,0.00006473694,0.000031045874,0.00037213016],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.998766,0.000063596286,0.0002416275,0.00051715743,0.000057706413,0.00035389693],"domain_scores_gemma":[0.9988166,0.000027808339,0.00022861674,0.0006897643,0.00015886537,0.000078324985],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00024564654,0.00020853145,0.0002593573,0.000039340513,0.0004500016,0.0000696808,0.00030937314,0.00031158386,0.0000040821765],"category_scores_gemma":[0.0003999642,0.00019754223,0.00014610111,0.000021145242,0.00014653214,7.984536e-7,0.00020040951,0.000073335315,0.000010598874],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000082274266,0.00002672296,0.0035916162,0.00003518499,0.00029941398,0.000009664101,0.000027073984,0.00006439326,0.97423375,0.020244664,0.0006516867,0.00073355413],"study_design_scores_gemma":[0.0061340127,0.0024525211,0.18752034,0.00027318523,0.00028494585,0.0005776462,0.0007046444,0.001478476,0.18658982,0.030442627,0.58061963,0.0029221394],"about_ca_topic_score_codex":0.000049391114,"about_ca_topic_score_gemma":0.000004598868,"teacher_disagreement_score":0.7876439,"about_ca_system_score_codex":0.000012022854,"about_ca_system_score_gemma":0.00005796688,"threshold_uncertainty_score":0.80555385},"labels":[],"label_agreement":null},{"id":"W2784588023","doi":"10.15252/msb.20177952","title":"Modeling signaling‐dependent pluripotency with Boolean logic to predict cell fate transitions","year":2018,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Pluripotent Stem Cells Research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":61,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Hospital for Sick Children; University of Toronto","funders":"University of Toronto; Japan Society for the Promotion of Science; Canada Research Chairs; Hospital for Sick Children; Keio University; Canadian Institutes of Health Research; Uehara Memorial Foundation","keywords":"Biology; Computational biology; Cell fate determination; Cell biology; Boolean network; Genetics; Boolean function; Transcription factor; Computer science; Gene","score_opus":0.013911419758178363,"score_gpt":0.2529598187851474,"score_spread":0.23904839902696903,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2784588023","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.57389396,0.001010885,0.4218163,0.00022419682,0.00022408228,0.00074125925,0.00007436066,0.000047571673,0.0019674045],"genre_scores_gemma":[0.996844,0.000038230046,0.0012241855,0.00038100683,0.00038075427,0.00016320695,0.00023474269,0.000069319656,0.00066453684],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9970817,0.00038243373,0.00044590075,0.0009861912,0.0002954417,0.0008083204],"domain_scores_gemma":[0.9984296,0.000008185379,0.00008147663,0.0007734673,0.00038394742,0.00032334303],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004473203,0.00036455636,0.00035705641,0.00019267651,0.00020953719,0.000057419547,0.00053694827,0.00035390529,0.000025772804],"category_scores_gemma":[0.00003266785,0.00030662998,0.00012616876,0.00023601456,0.00017533153,0.0000057325124,0.0001844773,0.00019882798,0.00017752104],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0001906172,0.000084375715,0.00015867004,0.000056174536,0.00010596793,0.00006296828,0.00008006605,0.021675218,0.9771071,0.0001955922,0.00014297587,0.00014024212],"study_design_scores_gemma":[0.0020183227,0.0060293167,0.000025006892,0.00013260747,0.00010081889,0.00028601257,0.00034762695,0.030995816,0.9518056,0.0001416889,0.00705427,0.001062947],"about_ca_topic_score_codex":0.00019243821,"about_ca_topic_score_gemma":0.00007592333,"teacher_disagreement_score":0.42295006,"about_ca_system_score_codex":0.000047086294,"about_ca_system_score_gemma":0.00014881752,"threshold_uncertainty_score":0.9999386},"labels":[],"label_agreement":null},{"id":"W2790008564","doi":"10.15252/msb.20167435","title":"Transcriptional regulatory networks underlying gene expression changes in Huntington's disease","year":2018,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Genetic Neurodegenerative Diseases","field":"Neuroscience","cited_by":87,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Huntington Society of Canada; CHDI Foundation; National Institute of Neurological Disorders and Stroke; Huntington's Disease Society of America; National Science Foundation","keywords":"Library science; Biology; Computer science","score_opus":0.040358158234581755,"score_gpt":0.28062663313111835,"score_spread":0.2402684748965366,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2790008564","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9751561,0.00083657156,0.022078166,0.00018397842,0.0010813671,0.00041640032,0.000025790037,0.00007084975,0.00015074959],"genre_scores_gemma":[0.9985535,0.000022484755,0.00008699372,0.00082670635,0.00025041949,0.00012611845,0.000019322437,0.000033073968,0.000081353726],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99754405,0.00083318487,0.00025957453,0.0007411129,0.00017938949,0.00044269193],"domain_scores_gemma":[0.9992014,0.00006048458,0.00010533239,0.00040570312,0.000053774143,0.00017326952],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00016474604,0.00021396825,0.00022143133,0.00016666202,0.00014597134,0.00004035111,0.00028126742,0.00011080332,0.000032937583],"category_scores_gemma":[0.00016656422,0.00020117937,0.00006599133,0.00023577402,0.00028820932,0.00004269394,0.00007795746,0.00011343502,0.000024442312],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000044518692,0.000045451587,0.0036418552,0.00001797475,0.0000026368314,0.000027758642,0.00003583487,0.0013769665,0.9918634,0.0027334488,0.000037477905,0.00017267354],"study_design_scores_gemma":[0.00039638457,0.00011049335,0.0182086,0.000060034352,0.000009686085,0.000006502495,0.000016287164,0.0039052656,0.9761336,0.00018586629,0.00072847196,0.00023883948],"about_ca_topic_score_codex":0.000016803802,"about_ca_topic_score_gemma":0.000016729848,"teacher_disagreement_score":0.0233974,"about_ca_system_score_codex":0.00003951628,"about_ca_system_score_gemma":0.000055056586,"threshold_uncertainty_score":0.8203857},"labels":[],"label_agreement":null},{"id":"W2796463180","doi":"10.15252/msb.20167390","title":"Single‐cell profiling screen identifies microtubule‐dependent reduction of variability in signaling","year":2018,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Applied Biological Materials (Canada)","funders":"National Institute of General Medical Sciences; National Human Genome Research Institute; Agencia Nacional de Promoción Científica y Tecnológica; National Institutes of Health; Branco Weiss Fellowship – Society in Science; North Carolina State University","keywords":"Biology; Library science; Environmental ethics; Philosophy; Computer science","score_opus":0.014172484877856804,"score_gpt":0.23642503303164972,"score_spread":0.22225254815379292,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2796463180","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.94684273,0.00088341796,0.050107185,0.00001604098,0.0008233027,0.00042972225,0.000027658867,0.00001595187,0.0008539697],"genre_scores_gemma":[0.9984281,0.000016140038,0.00096504437,0.000023944976,0.00028224432,0.000025180234,0.0001337195,0.000027775186,0.00009784498],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99779713,0.00062782096,0.0005838962,0.00056468975,0.0001039697,0.00032248598],"domain_scores_gemma":[0.9990758,0.000019579558,0.00019953438,0.00043798177,0.00021297441,0.00005417274],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0011430403,0.00020413529,0.00031969795,0.00011288276,0.000054125034,0.000022400749,0.0002497081,0.00036146474,0.00000710349],"category_scores_gemma":[0.00011978908,0.00020454504,0.00010725304,0.00014657008,0.0002448333,0.0000051085135,0.00008298918,0.0001180277,0.0000059407976],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00011900574,0.0001537276,0.0047710123,0.000103102095,0.00003904993,0.0000034456386,0.0000715676,0.000107861386,0.99415255,0.00014585585,0.000012764111,0.0003200911],"study_design_scores_gemma":[0.0004946716,0.00038714535,0.000091551665,0.000045562512,0.0000195554,0.000023037515,0.000109653076,0.00019744218,0.99804395,0.00009421776,0.0002874715,0.0002057485],"about_ca_topic_score_codex":0.0004978723,"about_ca_topic_score_gemma":0.00004262189,"teacher_disagreement_score":0.051585358,"about_ca_system_score_codex":0.000037843867,"about_ca_system_score_gemma":0.00006787568,"threshold_uncertainty_score":0.8341105},"labels":[],"label_agreement":null},{"id":"W2883171141","doi":"10.15252/msb.20188485","title":"Two protein/protein interaction assays in one go","year":2018,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"Biotin and Related Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"","keywords":"Biology; Computational biology; Protein–protein interaction; Proteomics; Genetics; Library science; Computer science; Gene","score_opus":0.01508723622794823,"score_gpt":0.2589687558139714,"score_spread":0.24388151958602317,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2883171141","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.4414011,0.07106159,0.015622093,0.35288897,0.01719093,0.016596323,0.0007093986,0.00052706024,0.08400252],"genre_scores_gemma":[0.865894,0.00035079807,0.0010095366,0.09331377,0.01302908,0.0015312392,0.0046097925,0.0003915791,0.019870155],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.9963172,0.0008698187,0.00070969,0.0011661026,0.00018949952,0.00074767944],"domain_scores_gemma":[0.99846715,0.000013105459,0.00042080725,0.00084375567,0.00019409157,0.00006110884],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.00042463254,0.0005971442,0.0007448195,0.00025775586,0.00009421751,0.000049564514,0.0004758062,0.003021549,0.000023311439],"category_scores_gemma":[0.0001280956,0.00054320716,0.00024841487,0.0001846089,0.00030194852,0.0000033587219,0.00034059488,0.0015109091,0.00021842425],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00006310715,0.00006312803,0.00007452425,0.00027001023,0.00051490765,0.00021826953,0.000021521892,0.000006078577,0.855094,0.0001704603,0.14325175,0.00025220812],"study_design_scores_gemma":[0.00090764154,0.00072734227,0.000011722329,0.0005379877,0.000053623222,0.000092488175,0.000030058221,0.000030863444,0.116769366,0.000105543666,0.8799762,0.0007571529],"about_ca_topic_score_codex":0.00045530612,"about_ca_topic_score_gemma":0.00008767154,"teacher_disagreement_score":0.73832464,"about_ca_system_score_codex":0.00009705368,"about_ca_system_score_gemma":0.00010296197,"threshold_uncertainty_score":0.9997019},"labels":[],"label_agreement":null},{"id":"W2888244195","doi":"10.15252/msb.20178129","title":"Proteome‐wide analysis of phospho‐regulated PDZ domain interactions","year":2018,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Hippo pathway signaling and YAP/TAZ","field":"Biochemistry, Genetics and Molecular Biology","cited_by":77,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Vetenskapsrådet; Knut och Alice Wallenbergs Stiftelse; Science for Life Laboratory; Carl Tryggers Stiftelse för Vetenskaplig Forskning; University of Toronto; Institut National de la Santé et de la Recherche Médicale; Åke Wiberg Stiftelse; Wenner-Gren Foundation","keywords":"PDZ domain; Biology; Proteome; Computational biology; Domain (mathematical analysis); Cell biology; Bioinformatics","score_opus":0.007918673375256901,"score_gpt":0.2613083125371757,"score_spread":0.25338963916191876,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2888244195","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9408777,0.00081550766,0.055959154,0.00006838643,0.00044946457,0.00032217434,0.00007913781,0.000030314402,0.0013981742],"genre_scores_gemma":[0.99805564,0.000010189448,0.0005826235,0.00012456973,0.0001557425,0.000069776994,0.00045046103,0.000027918666,0.00052310305],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9981609,0.00034162973,0.00050665246,0.0005347149,0.00010997654,0.00034615383],"domain_scores_gemma":[0.9986201,0.000021208523,0.00026698076,0.00068888953,0.00030031512,0.00010249898],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00037705543,0.00022782618,0.00046968696,0.0002956901,0.00009255686,0.00001795185,0.00028585867,0.00029250275,0.00005769478],"category_scores_gemma":[0.00011763387,0.00020704787,0.00029905685,0.0006695603,0.0002700013,0.000002846936,0.000103129445,0.00010325278,0.00003512158],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000075306736,0.000058883466,0.002818293,0.000016833694,0.0014640132,0.000006812099,0.00008572709,0.00019495089,0.9944842,0.00049495336,0.000097565,0.00020247679],"study_design_scores_gemma":[0.00043547124,0.0006701324,0.00089784834,0.000031778327,0.00034768708,0.000022847842,0.00010072395,0.0008946516,0.9538175,0.00008712615,0.04238165,0.00031257566],"about_ca_topic_score_codex":0.00030030104,"about_ca_topic_score_gemma":0.00009181893,"teacher_disagreement_score":0.05717793,"about_ca_system_score_codex":0.000022659353,"about_ca_system_score_gemma":0.00007377824,"threshold_uncertainty_score":0.8443167},"labels":[],"label_agreement":null},{"id":"W2950942463","doi":"10.15252/msb.20188497","title":"netDx: interpretable patient classification using integrated patient similarity networks","year":2019,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Machine Learning in Healthcare","field":"Computer Science","cited_by":106,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University of Toronto; Mount Sinai Hospital; Centre for Addiction and Mental Health","funders":"National Institute of General Medical Sciences; National Human Genome Research Institute; Canadian Institutes of Health Research; National Institutes of Health","keywords":"Biology; Similarity (geometry); Computational biology; Patient care; Artificial intelligence; Bioinformatics; Computer science","score_opus":0.014923473029798934,"score_gpt":0.26516715735558,"score_spread":0.25024368432578104,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2950942463","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.3936583,0.0007505387,0.602166,0.00014534593,0.0020661093,0.000547612,0.0000035208436,0.00014502532,0.000517554],"genre_scores_gemma":[0.9950611,0.000004412008,0.0042783762,0.00050031353,0.000032991236,0.000037824455,0.000043342323,0.00002010831,0.000021530741],"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.996997,0.001117237,0.00055160135,0.000687314,0.0001690443,0.0004777897],"domain_scores_gemma":[0.9982363,0.00007649689,0.00035227995,0.000989585,0.00022843292,0.00011690537],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00033945148,0.00023018611,0.0003532809,0.00013621758,0.00009584807,0.00011279134,0.00061716745,0.00028984068,0.00001641301],"category_scores_gemma":[0.00008322194,0.00020233748,0.0000828875,0.00038267803,0.000037844347,0.00012287009,0.00033199842,0.00044382454,0.000062441686],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008136247,0.00026610875,0.16574702,0.00039974824,0.00023240955,0.00011032645,0.0025800944,0.48878062,0.08574222,0.14168596,0.0005797235,0.11379441],"study_design_scores_gemma":[0.00012518297,0.00035184453,0.00064278534,0.00008705112,0.0000047017743,0.00004264196,0.00006860495,0.9910216,0.00023121847,0.00006413396,0.0071412465,0.00021898888],"about_ca_topic_score_codex":0.0014251671,"about_ca_topic_score_gemma":0.000008298229,"teacher_disagreement_score":0.60140276,"about_ca_system_score_codex":0.00022210131,"about_ca_system_score_gemma":0.00010610082,"threshold_uncertainty_score":0.82510835},"labels":[],"label_agreement":null},{"id":"W2951693812","doi":"10.15252/msb.20177985","title":"Mapping DNA damage‐dependent genetic interactions in yeast via party mating and barcode fusion genetics","year":2018,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; Lunenfeld-Tanenbaum Research Institute; Muscular Dystrophy Canada; University of Toronto","funders":"National Human Genome Research Institute; Canadian Institutes of Health Research; Israel National Road Safety Authority","keywords":"Biology; Genetics; Mating; Yeast; Computational biology; DNA; Barcode","score_opus":0.017885194174473183,"score_gpt":0.2888543747497163,"score_spread":0.2709691805752431,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2951693812","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.97287834,0.0021381686,0.023156768,0.00009918269,0.00042816618,0.00037273104,0.00002596385,0.000014050868,0.0008866214],"genre_scores_gemma":[0.99782455,0.00014358759,0.001095379,0.00013048432,0.00034358446,0.00006312897,0.000073574716,0.000034823617,0.00029090754],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99801695,0.0003617259,0.0004037629,0.00059860497,0.00013747097,0.000481453],"domain_scores_gemma":[0.99914986,0.000013991801,0.00010030472,0.00044482524,0.00014993774,0.00014106803],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002613429,0.00022422176,0.0002332556,0.0001765677,0.00012467698,0.00005019271,0.00025099824,0.00019021372,0.000021978867],"category_scores_gemma":[0.00006448418,0.00021474554,0.000054548065,0.00017188155,0.0002028201,0.0000035399746,0.00043502968,0.00017694084,0.000044897253],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000028935649,0.00003659638,0.010131524,0.000044843815,0.00003576704,0.000018602252,0.00010402782,0.00012232801,0.9863628,0.00003704214,0.00007074141,0.0030067824],"study_design_scores_gemma":[0.0016084422,0.001004593,0.032136712,0.00017646635,0.000023508986,0.0003866631,0.0005752202,0.026862536,0.9115548,0.00023331963,0.024573734,0.00086399243],"about_ca_topic_score_codex":0.00018539488,"about_ca_topic_score_gemma":0.00022778843,"teacher_disagreement_score":0.074807994,"about_ca_system_score_codex":0.000028626278,"about_ca_system_score_gemma":0.000058793958,"threshold_uncertainty_score":0.87570685},"labels":[],"label_agreement":null},{"id":"W2967946563","doi":"10.15252/msb.20188679","title":"CRISPR screens are feasible in TP53 wild‐type cells","year":2019,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":49,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research; University of Toronto","funders":"","keywords":"Library science; Computer science","score_opus":0.010495376489887657,"score_gpt":0.2958816565517814,"score_spread":0.28538628006189376,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2967946563","genre_codex":"review","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.25297305,0.28410003,0.19238612,0.1628643,0.057216853,0.015978329,0.0025708138,0.00074449135,0.031165987],"genre_scores_gemma":[0.7890424,0.0012837362,0.0006202886,0.1862844,0.006289167,0.00024204401,0.0048835278,0.00053342857,0.010821017],"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","domain_scores_codex":[0.9968797,0.00033211053,0.00058609946,0.0011380907,0.0001895482,0.0008744319],"domain_scores_gemma":[0.9982621,0.000029054803,0.00025379687,0.0012325406,0.00014923126,0.000073290976],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.00025436375,0.0006316976,0.0008185131,0.00028112315,0.000037713733,0.000045238816,0.00062770076,0.002376665,0.0000127392],"category_scores_gemma":[0.000058766684,0.00064240413,0.00024970024,0.00022593624,0.00008519611,0.0000029030377,0.00026831072,0.00095546036,0.000115068324],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000026510286,0.000023847078,0.00076404674,0.0004051465,0.00016435859,0.00035482986,0.0000129976925,0.0029927639,0.44356874,0.000027349288,0.55158657,0.00007284973],"study_design_scores_gemma":[0.0005877236,0.0003450624,0.00008817822,0.00018251615,0.00004932179,0.00009446469,0.000032668097,0.00028058098,0.055486158,0.00001980043,0.9419978,0.00083572627],"about_ca_topic_score_codex":0.0004047571,"about_ca_topic_score_gemma":0.000057377325,"teacher_disagreement_score":0.53606933,"about_ca_system_score_codex":0.000057649846,"about_ca_system_score_gemma":0.00013242672,"threshold_uncertainty_score":0.99960274},"labels":[],"label_agreement":null},{"id":"W2975112817","doi":"10.15252/msb.20198871","title":"Paralog dependency indirectly affects the robustness of human cells","year":2019,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":73,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval; PROTEO","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research","keywords":"Biology; Robustness (evolution); Gene; Loss function; Genetics; CRISPR; Function (biology); Computational biology; Fitness landscape; Phenotype; Cell biology; Population","score_opus":0.005581152104563375,"score_gpt":0.2218794613228935,"score_spread":0.21629830921833013,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2975112817","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9829192,0.0022418262,0.009654216,0.000031955315,0.0010191523,0.0006384347,0.000019450761,0.000011176786,0.0034645859],"genre_scores_gemma":[0.99900633,0.00002909129,0.00009009818,0.000101193546,0.00014549943,0.000032792137,0.000113333524,0.000023251014,0.00045839223],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9987311,0.00021274899,0.0003417316,0.00029266006,0.00009202457,0.00032976948],"domain_scores_gemma":[0.99892175,0.000018782257,0.00025625367,0.0006848288,0.000064442356,0.000053966927],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00039876276,0.0001986384,0.00030691933,0.0000466149,0.00006501743,0.000019284142,0.00044903214,0.00034959306,0.000015224651],"category_scores_gemma":[0.000010003111,0.00014109685,0.00013958548,0.00009641297,0.00011273257,0.0000024372464,0.00017448273,0.00013757715,0.000028064938],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000018486046,0.00002571359,0.0014887889,0.000087015156,0.00012382952,0.0000020966809,0.00003692915,0.0040396955,0.98982865,0.0031178186,0.0006932375,0.00053774106],"study_design_scores_gemma":[0.0029607587,0.002890428,0.0014627709,0.0001711687,0.00015187966,0.00018716016,0.0004809841,0.009552616,0.9491695,0.0008575861,0.030672146,0.0014429599],"about_ca_topic_score_codex":0.000049244314,"about_ca_topic_score_gemma":0.000017321127,"teacher_disagreement_score":0.040659104,"about_ca_system_score_codex":0.000009980184,"about_ca_system_score_gemma":0.000046509245,"threshold_uncertainty_score":0.5753763},"labels":[],"label_agreement":null},{"id":"W3006268927","doi":"10.15252/msb.20199243","title":"Systematic genetics and single‐cell imaging reveal widespread morphological pleiotropy and cell‐to‐cell variability","year":2020,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cell Image Analysis Techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":63,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"FP7 Ideas: European Research Council; National Human Genome Research Institute; Canadian Institutes of Health Research; European Commission; National Cancer Institute; National Institutes of Health; Ministerio de Economía y Competitividad; Government of Canada; Ontario Institute for Cancer Research; Canada Research Chairs; Canadian Institute for Advanced Research","keywords":"Biology; Phenotype; Pleiotropy; Genetics; Endocytic cycle; Penetrance; Single-cell analysis; Cell; Organelle; Mutant; Gene; Endosome; Cell biology; Endocytosis","score_opus":0.007575116210705145,"score_gpt":0.22982735399168985,"score_spread":0.2222522377809847,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3006268927","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8733067,0.010946159,0.112960115,0.00025809414,0.00006597037,0.0011616114,0.000020091938,0.000078026125,0.0012032534],"genre_scores_gemma":[0.99404407,0.00015072744,0.004166195,0.0012046344,0.000109152854,0.0000963108,0.00007682835,0.00004990775,0.000102199],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99666345,0.0009005213,0.00069533876,0.0011424787,0.00013792288,0.00046027423],"domain_scores_gemma":[0.9984672,0.00007619115,0.0002582842,0.00070916273,0.00014555297,0.00034362017],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00062489155,0.00040403794,0.00073211733,0.000080419166,0.000086309345,0.000097730124,0.000348481,0.00033328892,0.0000048547067],"category_scores_gemma":[0.00033932165,0.00036358985,0.00013622237,0.0001772378,0.00020328816,0.0000052911905,0.00057501125,0.00018342308,0.000013488089],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000031236144,0.00007197446,0.0040403,0.0020540608,0.00004416467,0.000072530675,0.00006203301,0.00002610385,0.99275,0.000021562179,0.0007614797,0.000064575],"study_design_scores_gemma":[0.0005526642,0.00084376184,0.00012547472,0.00012995896,0.00021670696,0.00014732509,0.00012210953,0.0016827923,0.99388015,0.000047863934,0.001677831,0.0005733516],"about_ca_topic_score_codex":0.00005146025,"about_ca_topic_score_gemma":0.0000018734156,"teacher_disagreement_score":0.12073737,"about_ca_system_score_codex":0.000029713234,"about_ca_system_score_gemma":0.000035257362,"threshold_uncertainty_score":0.9998816},"labels":[],"label_agreement":null},{"id":"W3080133182","doi":"10.15252/msb.20199110","title":"SBML Level 3: an extensible format for the exchange and reuse of biological models","year":2020,"lang":"en","type":"review","venue":"Molecular Systems Biology","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":306,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Terry Fox Research Institute; University of Toronto","funders":"Los Alamos National Laboratory; Biological and Environmental Research; National Institute of Biomedical Imaging and Bioengineering; National Institute of General Medical Sciences; Fundação para a Ciência e a Tecnologia; Japan Society for the Promotion of Science; University of California, San Diego; National Nuclear Security Administration; National Institutes of Health; Novo Nordisk Foundation Center for Basic Metabolic Research; Novo Nordisk; Ministerstvo Školství, Mládeže a Tělovýchovy; Bundesministerium für Bildung und Forschung; National Institute of Allergy and Infectious Diseases; Leibniz-Institut für Arbeitsforschung an der TU Dortmund; Agence Nationale de la Recherche; Universiteit Maastricht; Ministry of Education, Culture, Sports, Science and Technology; Institut National de la Santé et de la Recherche Médicale; Institut national de recherche en informatique et en automatique (INRIA); Deutsche Forschungsgemeinschaft; Klaus Tschira Stiftung; AstraZeneca; National Science Foundation; UK Research and Innovation; European Molecular Biology Laboratory; University of Connecticut; European Commission; Advanced Scientific Computing Research; U.S. Department of Energy; Alan Turing Institute; Novo Nordisk Fonden; Newcastle University; Russian Foundation for Basic Research; Biotechnology and Biological Sciences Research Council; Cancer Research UK; Siberian Branch, Russian Academy of Sciences","keywords":"Library science; SBML; Computer science; World Wide Web","score_opus":0.1370302979095098,"score_gpt":0.3330880094755154,"score_spread":0.19605771156600563,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3080133182","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.00033912197,0.94783735,0.049699105,0.000035688525,0.00022545483,0.0014576971,0.00035786183,0.000016566002,0.00003117274],"genre_scores_gemma":[0.00805356,0.9891843,0.0006977053,0.00007998609,0.0003834388,0.00041346272,0.0010345962,0.00007852315,0.000074425094],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.99711347,0.0006583303,0.0008126278,0.000874173,0.00010092679,0.00044046016],"domain_scores_gemma":[0.99757886,0.0000799094,0.00058180426,0.0014340465,0.00017184354,0.00015353702],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0005812188,0.00054218556,0.0017832785,0.00010459517,0.00010916194,0.000028752676,0.0009137229,0.0010029167,0.0000023764392],"category_scores_gemma":[0.00013194441,0.0003414402,0.0006715835,0.00020405017,0.00026185464,0.000004399351,0.0006128637,0.00016496118,0.0000025092995],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00018378091,0.00016791819,0.000028432289,0.017531812,0.006005797,0.000035198078,0.00015090941,0.00086124084,0.02107242,0.0071025346,0.0047452324,0.9421147],"study_design_scores_gemma":[0.00027282417,0.0006388592,0.0000010551315,0.00033137412,0.00084232923,0.00013436042,0.00003270512,0.002425022,0.00024726512,0.00014067622,0.9945026,0.00043090936],"about_ca_topic_score_codex":0.000036742455,"about_ca_topic_score_gemma":0.0000133985195,"teacher_disagreement_score":0.98975736,"about_ca_system_score_codex":0.000021600254,"about_ca_system_score_gemma":0.00018314386,"threshold_uncertainty_score":0.99990374},"labels":[],"label_agreement":null},{"id":"W3085447330","doi":"10.15252/msb.20209828","title":"Systematic analysis of bypass suppression of essential genes","year":2020,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"RNA modifications and cancer","field":"Biochemistry, Genetics and Molecular Biology","cited_by":71,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Sinai Health System; Lunenfeld-Tanenbaum Research Institute; University of Toronto","funders":"National Human Genome Research Institute; Canadian Institutes of Health Research; National Science Foundation; National Institutes of Health; Government of Canada; Canadian Institute for Advanced Research; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung","keywords":"Library science; Computer science","score_opus":0.009337286362162451,"score_gpt":0.2595568809728134,"score_spread":0.2502195946106509,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3085447330","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8923097,0.011707295,0.09503696,0.00007803028,0.00019043752,0.00036157254,0.00010545022,0.0000084046615,0.00020211293],"genre_scores_gemma":[0.9993536,0.00011482986,0.00011262448,0.000048109385,0.000051550065,0.000049628685,0.00022250919,0.000012647118,0.000034541874],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9986312,0.00026934093,0.0005512449,0.00030782507,0.00010191625,0.00013852217],"domain_scores_gemma":[0.99895144,0.000013177108,0.0003703038,0.00043671433,0.00016538403,0.00006296763],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00015007352,0.00012664082,0.0005514057,0.0001003324,0.000021769869,0.000006223781,0.00025242436,0.00017363467,0.00001224223],"category_scores_gemma":[0.00008008931,0.00010501501,0.00025179595,0.00036675195,0.00008387244,0.0000016590534,0.000079408135,0.000035513254,0.000002270481],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000031256513,0.000026942984,0.0014299996,0.0013802336,0.0013685806,0.0000012836487,0.00004194023,0.0017643059,0.99299306,0.0008408696,0.00008347255,0.000038047758],"study_design_scores_gemma":[0.00036727547,0.00029694458,0.00047716885,0.00016656198,0.0011686794,0.0000039578363,0.00016681386,0.0062236907,0.99014646,0.000005893619,0.00078036403,0.00019619141],"about_ca_topic_score_codex":0.00007051957,"about_ca_topic_score_gemma":0.000003717103,"teacher_disagreement_score":0.10704382,"about_ca_system_score_codex":0.0000054074767,"about_ca_system_score_gemma":0.000040988154,"threshold_uncertainty_score":0.42823878},"labels":[],"label_agreement":null},{"id":"W3105270848","doi":"10.15252/msb.20199245","title":"Dormancy‐to‐death transition in yeast spores occurs due to gradual loss of gene‐expressing ability","year":2020,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Institute for Advanced Research","funders":"H2020 European Research Council; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; Canadian Institute for Advanced Research","keywords":"Biology; Dormancy; Spore; Yeast; Gene; Transition (genetics); Genetics; Saccharomyces cerevisiae; Botany; Germination","score_opus":0.019856145205404498,"score_gpt":0.28081242228203895,"score_spread":0.26095627707663444,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3105270848","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9734883,0.0008310276,0.024095288,0.0005765815,0.00014428428,0.00053466327,0.00015215896,0.000011099416,0.0001666382],"genre_scores_gemma":[0.99859846,0.000013368532,0.0005764385,0.00041260076,0.00015396057,0.00005727892,0.00015329794,0.000023979203,0.0000106442985],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9981808,0.00027577812,0.000407881,0.0005805291,0.00016441,0.00039060015],"domain_scores_gemma":[0.99920404,0.000008283402,0.0000624644,0.00034703148,0.00012559259,0.0002526029],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00026900248,0.0001957838,0.00034652377,0.00011102137,0.00003204016,0.000016541499,0.00030855948,0.000217209,0.000005532319],"category_scores_gemma":[0.00009953203,0.00018616462,0.000099981284,0.00027585373,0.0000771106,0.0000028148932,0.00013212679,0.00011936923,0.00002211445],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00024849948,0.00005301003,0.005345912,0.00011082324,0.000029714192,0.000049803657,0.00030670813,0.002848252,0.9903249,0.00009037177,0.00009448292,0.00049749523],"study_design_scores_gemma":[0.0005973094,0.0010154755,0.0077550965,0.000053582502,0.000009688656,0.00003947507,0.00012157286,0.00048609974,0.98679954,0.000027068221,0.0028045133,0.00029058298],"about_ca_topic_score_codex":0.00021384707,"about_ca_topic_score_gemma":0.000025063031,"teacher_disagreement_score":0.025110172,"about_ca_system_score_codex":0.000019921774,"about_ca_system_score_gemma":0.00008166479,"threshold_uncertainty_score":0.75915724},"labels":[],"label_agreement":null},{"id":"W3105842719","doi":"10.15252/msb.20209888","title":"Gene expression profiling reveals insights into infant immunological and febrile responses to group B meningococcal vaccine","year":2020,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bacterial Infections and Vaccines","field":"Immunology and Microbiology","cited_by":15,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"Medical Research Council; European Commission; NIHR Oxford Biomedical Research Centre; University of Oxford; National Institute for Health and Care Research; UK Research and Innovation; FP7 Ideas: European Research Council; Wellcome Trust; GlaxoSmithKline","keywords":"Reactogenicity; Vaccination; Immunogenicity; Meningococcal vaccine; Neisseria meningitidis; Immunology; Biology; Gene expression profiling; Medicine; Gene expression; Immunization; Immune system; Gene; Genetics","score_opus":0.015464788117079067,"score_gpt":0.2542413682925274,"score_spread":0.23877658017544834,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3105842719","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98174345,0.0114076,0.0046006823,0.00053272594,0.0008336915,0.0006731135,0.000016920876,0.0001473158,0.000044487595],"genre_scores_gemma":[0.99846935,0.00009324326,0.0006018864,0.00033206333,0.00012543176,0.00016730645,0.00013343438,0.000021962056,0.00005534505],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9977057,0.00085558963,0.000486231,0.0005908904,0.000015668611,0.0003458981],"domain_scores_gemma":[0.99928886,0.00010357245,0.00017066808,0.00027545632,0.00008035493,0.00008106182],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00021796318,0.0002626561,0.00055456284,0.00013408945,0.00022840123,0.00003364483,0.00018833381,0.000475704,0.000055258835],"category_scores_gemma":[0.00035880905,0.00019576089,0.00007028179,0.0002040706,0.00005023537,0.000054556906,0.00035298395,0.00024534378,0.00014212771],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00060542277,0.000034261284,0.005576063,0.00002925715,0.00009242593,0.000010857836,0.000325132,0.0000033640727,0.9909292,0.001661097,0.00024697479,0.00048594197],"study_design_scores_gemma":[0.0013668087,0.0016640808,0.006026612,0.00006500911,0.000032783373,0.00018433479,0.00015093214,0.000016297183,0.94753975,0.00009720897,0.042486623,0.0003695424],"about_ca_topic_score_codex":0.00021415086,"about_ca_topic_score_gemma":0.0000044386875,"teacher_disagreement_score":0.043389436,"about_ca_system_score_codex":0.000025387226,"about_ca_system_score_gemma":0.000020196561,"threshold_uncertainty_score":0.7982897},"labels":[],"label_agreement":null},{"id":"W3112226911","doi":"10.15252/msb.20209844","title":"Integrative characterization of the near‐minimal bacterium Mesoplasma florum","year":2020,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Legume Nitrogen Fixing Symbiosis","field":"Agricultural and Biological Sciences","cited_by":17,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Sherbrooke","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Bacteria; Computational biology; Genetics","score_opus":0.010716952559442381,"score_gpt":0.19229511694367887,"score_spread":0.1815781643842365,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3112226911","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9942826,0.00006279165,0.000046288103,0.0045607197,0.0003757246,0.00029141796,0.00012428703,0.00003919928,0.0002169485],"genre_scores_gemma":[0.9990923,0.0000014110387,0.000020283858,0.0005958515,0.00011677076,0.000020677126,0.000105493586,0.0000016150221,0.00004560651],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99883467,0.00035715319,0.00024585,0.00026430903,0.00009771423,0.00020030484],"domain_scores_gemma":[0.99953675,0.000039238097,0.00019893007,0.00007499435,0.00008843294,0.00006163044],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009919091,0.00014219356,0.00024995295,0.000005057375,0.000085237756,0.0000309844,0.0003534171,0.00014828377,0.00005539409],"category_scores_gemma":[0.000088377885,0.00004518137,0.00012911065,0.0003083774,0.000118118245,0.000039888215,0.00012905787,0.00010954641,0.000033790788],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00001666662,0.000012158883,0.008784689,0.000008488638,0.0000274248,0.0000015683279,0.0001487987,2.0910466e-7,0.98979074,0.00056444656,0.000049848302,0.0005949804],"study_design_scores_gemma":[0.00015252712,0.0004601545,0.05660749,0.000034527064,0.000025677156,0.000014378491,0.00016253661,0.00038162433,0.9314868,0.000016753602,0.010451677,0.00020587824],"about_ca_topic_score_codex":0.0000898454,"about_ca_topic_score_gemma":0.0000111813515,"teacher_disagreement_score":0.058303945,"about_ca_system_score_codex":0.000014887806,"about_ca_system_score_gemma":0.0000138503665,"threshold_uncertainty_score":0.18424428},"labels":[],"label_agreement":null},{"id":"W3112523972","doi":"10.15252/msb.20199310","title":"Large‐scale survey and database of high affinity ligands for peptide recognition modules","year":2020,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Advanced biosensing and bioanalysis techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":39,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Structural Genomics Consortium; University of Toronto","funders":"Canadian Institutes of Health Research","keywords":"Library science; Sociology; Media studies; Computer science","score_opus":0.023498355086802595,"score_gpt":0.2747574196850126,"score_spread":0.25125906459821,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3112523972","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8848149,0.0007848481,0.11233047,0.00010152802,0.000057891895,0.00027619343,0.0015886575,0.000026257345,0.00001920955],"genre_scores_gemma":[0.99156106,0.00020033823,0.0042075487,0.0002256051,0.00010382347,0.000026338363,0.0036388042,0.000020444772,0.000016046557],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9988189,0.00013374751,0.00030651534,0.00046982165,0.000056925695,0.00021411694],"domain_scores_gemma":[0.9992317,0.00003111614,0.00017726749,0.00026471316,0.00020649073,0.000088725465],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00039292275,0.00016917639,0.00033793418,0.000041818796,0.000053606353,0.000011247463,0.00011549816,0.0002213069,5.438541e-7],"category_scores_gemma":[0.00030715353,0.00015067171,0.00008813862,0.00010549239,0.00010341861,0.0000034474467,0.0001164402,0.00006265488,8.124694e-7],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0001649965,0.000037267895,0.0017693576,0.00009135692,0.00008427923,0.0000016427837,0.000019933557,0.000004806206,0.99687326,0.00007098081,0.00039099265,0.0004911524],"study_design_scores_gemma":[0.0005667046,0.0006566083,0.0006613829,0.000026305655,0.000045596495,0.000010014626,0.00008305473,0.00047340352,0.9956076,0.000112954105,0.001531317,0.0002250397],"about_ca_topic_score_codex":0.000096491436,"about_ca_topic_score_gemma":0.00009425296,"teacher_disagreement_score":0.10812292,"about_ca_system_score_codex":0.0000048654865,"about_ca_system_score_gemma":0.000020665135,"threshold_uncertainty_score":0.6144214},"labels":[],"label_agreement":null},{"id":"W3158393388","doi":"10.15252/msb.202110302","title":"Spurious regulatory connections dictate the expression‐fitness landscape of translation factors","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":20,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"National Institute of General Medical Sciences; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; Government of Canada; National Science Foundation; Pew Charitable Trusts; Richard and Susan Smith Family Foundation; Searle Scholars Program; Alfred P. Sloan Foundation; Howard Hughes Medical Institute","keywords":"Library science; Gene technology; Oak Ridge National Laboratory; Biology; Computer science; Physics","score_opus":0.013730971878526326,"score_gpt":0.23658729870002562,"score_spread":0.2228563268214993,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3158393388","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9501774,0.00940128,0.038647328,0.0001345747,0.0005999507,0.00027024306,0.000045601897,0.000016958647,0.0007066805],"genre_scores_gemma":[0.9991229,0.00009174562,0.00016214505,0.000048732334,0.00008975279,0.000053526262,0.00018769094,0.00002255725,0.0002209512],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9985482,0.000508998,0.00030554584,0.00033457598,0.00010199308,0.00020065678],"domain_scores_gemma":[0.9990882,0.00004227228,0.00015296332,0.0005430993,0.00012304675,0.000050382292],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00023139444,0.00015984497,0.00023357662,0.000039107777,0.00011207656,0.000015839409,0.00018775115,0.00026009747,0.000027702114],"category_scores_gemma":[0.000079737416,0.00011306919,0.00015053496,0.00011282653,0.00008940175,0.0000027158412,0.000055171957,0.000069426664,0.000003547809],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00002093556,0.000025306446,0.001163846,0.000026733645,0.00007408197,0.0000057613347,0.00007379598,0.00015494761,0.9964984,0.0012740344,0.000091198664,0.00059092394],"study_design_scores_gemma":[0.0002716278,0.000102922786,0.00046150133,0.000027931848,0.000027554888,0.000042442436,0.0002771196,0.000036547088,0.9853854,0.00016709372,0.013055618,0.00014420396],"about_ca_topic_score_codex":0.000028104128,"about_ca_topic_score_gemma":0.00001311346,"teacher_disagreement_score":0.048945516,"about_ca_system_score_codex":0.0000053845274,"about_ca_system_score_gemma":0.00007472463,"threshold_uncertainty_score":0.46108276},"labels":[],"label_agreement":null},{"id":"W3161985476","doi":"10.15252/msb.202010013","title":"A method for benchmarking genetic screens reveals a predominant mitochondrial bias","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Mitochondrial Function and Pathology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Human Genome Research Institute; Canada Research Chairs; Deutsche Forschungsgemeinschaft; Ontario Research Foundation; Canadian Institutes of Health Research; Genome Canada; National Cancer Institute; National Institutes of Health; National Science Foundation","keywords":"Biology; Benchmarking; Mitochondrial DNA; Genetics; Computational biology; Evolutionary biology; Gene","score_opus":0.024341259919620772,"score_gpt":0.29604538610279374,"score_spread":0.27170412618317297,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3161985476","genre_codex":"methods","genre_gemma":"methods","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"methods","genre_consensus":"methods","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.067672685,0.004413175,0.92237324,0.00018193529,0.0035016797,0.000975579,0.00015773396,0.000031476065,0.0006924924],"genre_scores_gemma":[0.29276487,0.00032995298,0.68368155,0.0028429572,0.007899458,0.0017563228,0.0030908212,0.00023160828,0.007402473],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99659777,0.0010749262,0.00060965726,0.0010339441,0.00010962697,0.0005741054],"domain_scores_gemma":[0.99839896,0.000095090596,0.00023826264,0.0007547133,0.00035278438,0.00016017104],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00042798615,0.0003238074,0.0005348838,0.00009669911,0.00014175738,0.000048595848,0.00024798754,0.0006278263,0.000073621224],"category_scores_gemma":[0.0005764225,0.00031084227,0.0003583076,0.00017273251,0.00007974503,0.0000024194198,0.00017261403,0.00013128044,0.000021741778],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00021230835,0.000048904058,0.00059398316,0.00006239831,0.00016242961,0.00006613927,0.000024949146,0.00022066053,0.98925835,0.0020673329,0.004875366,0.0024071606],"study_design_scores_gemma":[0.003211565,0.0015819644,0.00015923589,0.0000694673,0.00017335078,0.0014756466,0.00011728774,0.0018827678,0.39860138,0.00048245586,0.5914632,0.0007816506],"about_ca_topic_score_codex":0.000068522786,"about_ca_topic_score_gemma":0.000058607027,"teacher_disagreement_score":0.590657,"about_ca_system_score_codex":0.000023949695,"about_ca_system_score_gemma":0.00020250678,"threshold_uncertainty_score":0.9999344},"labels":[],"label_agreement":null},{"id":"W3165074360","doi":"10.15252/msb.20209536","title":"From coarse to fine: the absolute Escherichia coli proteome under diverse growth conditions","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":156,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"National Institute of General Medical Sciences; European Research Council; National Institutes of Health; SystemsX.ch; National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada; European Commission; National Research Foundation of Korea; Howard Hughes Medical Institute","keywords":"Biology; Proteome; Escherichia coli; Computational biology; Microbiology; Biochemistry; Gene","score_opus":0.013169848584422618,"score_gpt":0.27404954185547586,"score_spread":0.26087969327105326,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3165074360","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.7311111,0.00034603733,0.26160762,0.0025345564,0.00014205345,0.00063478365,0.00074065337,0.00018827563,0.0026949185],"genre_scores_gemma":[0.9877687,0.000013711903,0.008421431,0.00070944574,0.00016106326,0.0014421358,0.00045614457,0.000031038613,0.0009963029],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9989555,0.000067989036,0.00025085465,0.00039934038,0.00007611118,0.00025021346],"domain_scores_gemma":[0.9989759,0.000056622233,0.00010634917,0.00062427676,0.00014604618,0.000090843845],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000062618055,0.00016301502,0.00021212791,0.000021232872,0.00018245782,0.00003845999,0.00029727502,0.00018285151,0.00022103761],"category_scores_gemma":[0.000054080465,0.00013495628,0.000085390995,0.00019143533,0.000093392504,0.000022584796,0.00020043596,0.00020501442,0.000109704844],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0000053539256,0.000031314117,0.00005259572,0.000015411173,0.000056439887,0.000021163745,0.000042625674,0.00012808487,0.9653965,0.03314744,0.0010675859,0.000035437202],"study_design_scores_gemma":[0.00041044576,0.00003212128,0.00009886724,0.00006398234,0.00006086868,0.000028961344,0.00047863458,0.00045725118,0.93033606,0.018190209,0.049440637,0.00040197666],"about_ca_topic_score_codex":0.00055621477,"about_ca_topic_score_gemma":0.000033390617,"teacher_disagreement_score":0.2566576,"about_ca_system_score_codex":0.000063359905,"about_ca_system_score_gemma":0.00006592249,"threshold_uncertainty_score":0.55033576},"labels":[],"label_agreement":null},{"id":"W3165452661","doi":"10.15252/msb.202010138","title":"Natural variants suppress mutations in hundreds of essential genes","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":34,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"Fondation pour la Recherche Médicale; Eesti Teadusagentuur; Wellcome Trust; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; National Science Foundation","keywords":"Biology; Genetics; Allele; Gene; Genetic architecture; Context (archaeology); Mutant; Phenotype; Genetic variation; Mutation","score_opus":0.008176868705119585,"score_gpt":0.28080242758800866,"score_spread":0.2726255588828891,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3165452661","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98209804,0.013812251,0.0024929764,0.000070322385,0.0005851769,0.0001662025,0.000061950355,0.00000519872,0.0007078703],"genre_scores_gemma":[0.99848264,0.00013116549,0.00028172258,0.00003002033,0.00010524055,0.000032686712,0.0004768865,0.000017414102,0.00044223655],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99855053,0.00034448417,0.00031189286,0.00038102546,0.00011648119,0.00029559573],"domain_scores_gemma":[0.99927634,0.0000151893055,0.00006705897,0.00036263117,0.00022128611,0.000057482543],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001541333,0.00012852791,0.00022665664,0.00009063337,0.00003119423,0.00001644298,0.00020995284,0.00021003901,0.000017854414],"category_scores_gemma":[0.0000994873,0.00012829174,0.00009080262,0.00020672232,0.00011500519,0.0000020251534,0.00019339634,0.000105312545,0.000007678287],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00003159457,0.00007029672,0.003068178,0.000053941138,0.00007163094,0.00006634748,0.000024822419,0.0004841876,0.99494857,0.00068703626,0.000052787615,0.0004406115],"study_design_scores_gemma":[0.00056348153,0.000115565905,0.0026367086,0.000020334915,0.0000109718285,0.00009354651,0.00008958909,0.0006218935,0.99332017,0.000061540944,0.0023101913,0.00015598527],"about_ca_topic_score_codex":0.00012581961,"about_ca_topic_score_gemma":0.00008681108,"teacher_disagreement_score":0.016384576,"about_ca_system_score_codex":0.000010497929,"about_ca_system_score_gemma":0.00016216317,"threshold_uncertainty_score":0.5231585},"labels":[],"label_agreement":null},{"id":"W3168292662","doi":"10.15252/msb.202110207","title":"A genome‐scale yeast library with inducible expression of individual genes","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":74,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Occupational Cancer Research Centre; University of Toronto","funders":"National Institute of General Medical Sciences; Canadian Institutes of Health Research; Government of Canada; National Institutes of Health; University of Toronto; Office of Extramural Research, National Institutes of Health; Princeton University","keywords":"Griffin; Library science; Research centre; Biology; History; Classics; Computer science","score_opus":0.006690018935849069,"score_gpt":0.2538359586395523,"score_spread":0.24714593970370322,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3168292662","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95358247,0.014302992,0.030716866,0.000026522705,0.00016242398,0.00014890278,0.00007435731,0.000018751536,0.0009667216],"genre_scores_gemma":[0.99683005,0.00013520707,0.0020112046,0.000049121685,0.00013008094,0.00003181226,0.0004928379,0.000035334815,0.0002843703],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99894494,0.00010999583,0.00022816897,0.00038820287,0.00009758143,0.00023113085],"domain_scores_gemma":[0.9993291,0.0000047320536,0.000077294855,0.00045127238,0.00006113736,0.000076472985],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000081929145,0.00016104897,0.00023174679,0.00005615508,0.000029579158,0.000020060588,0.00020151613,0.0002141901,0.000018935287],"category_scores_gemma":[0.000011548248,0.00013883707,0.00006874111,0.00014040557,0.00006193314,0.000003333908,0.00021620214,0.000072262636,0.0000035939772],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000023860823,0.000036637666,0.0038251106,0.00006290749,0.00006618796,0.000023047782,0.000046795754,0.00078419613,0.9946555,0.00006067969,0.00007158,0.00034353224],"study_design_scores_gemma":[0.00036868014,0.00022029316,0.0020003205,0.000035564703,0.000021214551,0.00011481162,0.00015692423,0.000014654171,0.9793268,0.000006840651,0.0175567,0.00017721856],"about_ca_topic_score_codex":0.0000064908995,"about_ca_topic_score_gemma":0.0000033400265,"teacher_disagreement_score":0.04324757,"about_ca_system_score_codex":0.0000032451337,"about_ca_system_score_gemma":0.00010045449,"threshold_uncertainty_score":0.56616116},"labels":[],"label_agreement":null},{"id":"W3184405228","doi":"10.15252/msb.202010099","title":"Genome‐scale metabolic modeling reveals key features of a minimal gene set","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Sherbrooke","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada; Novo Nordisk Fonden; Novo Nordisk","keywords":"Biology; Genome; In silico; Computational biology; Gene; Metabolic network; Model organism; Organism; Genetics","score_opus":0.00867065859917335,"score_gpt":0.22921082466558207,"score_spread":0.22054016606640872,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3184405228","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.92703974,0.044372983,0.027415365,0.0000587978,0.0006329736,0.00017265075,0.0001007082,0.000020299041,0.00018646308],"genre_scores_gemma":[0.99545336,0.00067434687,0.00222705,0.000055093908,0.0005072989,0.000024835294,0.0005257906,0.000032335683,0.0004998935],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99844635,0.00021766937,0.0003973338,0.0005407362,0.000086009466,0.00031188354],"domain_scores_gemma":[0.9990061,0.0000023668342,0.000117069,0.0005592434,0.00023909223,0.00007612127],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002858924,0.000215982,0.00042687316,0.00007527415,0.000041595034,0.000015730073,0.00018318614,0.00030519447,0.000005686701],"category_scores_gemma":[0.000097379154,0.00020439264,0.00016984764,0.00018069717,0.00005192992,0.00000247757,0.00012216564,0.00009317716,0.0000043133305],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000025051206,0.00003103108,0.00011962666,0.00006451223,0.00014997629,0.000008237585,0.00004324215,0.0036562262,0.99536216,0.00028332337,0.00009591751,0.00016068744],"study_design_scores_gemma":[0.00031646175,0.000093464805,0.00034208375,0.000017415945,0.000059535803,0.0003030977,0.00005802033,0.00023153787,0.9804198,0.000016741102,0.017897967,0.00024385817],"about_ca_topic_score_codex":0.00006763152,"about_ca_topic_score_gemma":0.000008275715,"teacher_disagreement_score":0.06841359,"about_ca_system_score_codex":0.000007796956,"about_ca_system_score_gemma":0.00006738546,"threshold_uncertainty_score":0.833489},"labels":[],"label_agreement":null},{"id":"W3202305688","doi":"10.15252/msb.202110574","title":"An engineered Mycoplasma pneumoniae to fight Staphylococcus aureus","year":2021,"lang":"en","type":"letter","venue":"Molecular Systems Biology","topic":"Microbial infections and disease research","field":"Immunology and Microbiology","cited_by":4,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Sherbrooke","funders":"","keywords":"Biology; Microbiology; Staphylococcus aureus; Biofilm; Mycoplasma pneumoniae; Pathogen; Virulence; Antimicrobial; Genetically engineered; Mycoplasma; Drug resistance; Bacteria; Pneumonia; Gene; Medicine","score_opus":0.012402781142059787,"score_gpt":0.2634124519194242,"score_spread":0.2510096707773644,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3202305688","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.44030493,0.12440116,0.027653482,0.3310068,0.041874804,0.011091858,0.015144215,0.0022429577,0.006279815],"genre_scores_gemma":[0.6211827,0.0002341523,0.00010608601,0.31601134,0.0038250892,0.0017136978,0.03851271,0.00049365876,0.017920602],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99479824,0.00186475,0.0006681376,0.0012967485,0.00007916294,0.001292951],"domain_scores_gemma":[0.997604,0.00013285453,0.00017008491,0.0015575164,0.0003976494,0.00013785363],"candidate_categories":["metaepi_narrow","research_integrity","insufficient_payload"],"consensus_categories":["insufficient_payload"],"category_scores_codex":[0.0003064456,0.0006787434,0.0010977758,0.00068955246,0.00023656404,0.00013127984,0.00074930716,0.0030801608,0.001036856],"category_scores_gemma":[0.00012122942,0.0006346262,0.0003760668,0.00045587646,0.0001564908,0.000043913562,0.00025246807,0.0019811725,0.0023884687],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000013287505,0.000060937327,0.00003427192,0.00012407682,0.0004062041,0.00086150935,0.00002845377,0.000059377217,0.5667548,0.00013574041,0.43138248,0.00013882366],"study_design_scores_gemma":[0.00048669436,0.00043032554,0.0000066838006,0.000113202645,0.00009028351,0.00050256075,0.000027652062,0.000010596936,0.038875323,0.00001449488,0.95874465,0.0006975121],"about_ca_topic_score_codex":0.0007784544,"about_ca_topic_score_gemma":0.00003490052,"teacher_disagreement_score":0.5278795,"about_ca_system_score_codex":0.00018202708,"about_ca_system_score_gemma":0.000383294,"threshold_uncertainty_score":0.9998763},"labels":[],"label_agreement":null},{"id":"W3205620409","doi":"10.15252/msb.202110387","title":"COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":111,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Occupational Cancer Research Centre; University of Toronto; Ontario Institute for Cancer Research","funders":"Bundesministerium für Bildung und Forschung; Association Nationale de la Recherche et de la Technologie; National Institute of General Medical Sciences; Horizon 2020 Framework Programme; ZonMw; Biotechnology and Biological Sciences Research Council; H2020 Marie Skłodowska-Curie Actions; National Human Genome Research Institute; Fonds National de la Recherche Luxembourg; Deutsches Zentrum für Infektionsforschung; H2020 LEIT Information and Communication Technologies; European Commission","keywords":"Interoperability; Data science; Computer science; Representation (politics); Resource (disambiguation); Computational model; Perspective (graphical); Biology; Computational biology; World Wide Web; Artificial intelligence","score_opus":0.006832483697214791,"score_gpt":0.2423652035600461,"score_spread":0.2355327198628313,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3205620409","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.123829946,0.011305546,0.8589082,0.00012242788,0.0024249295,0.00035935224,0.0001735514,0.000024232073,0.002851844],"genre_scores_gemma":[0.996274,0.000026723235,0.0020754733,0.00016139516,0.00014515186,0.00002931367,0.0007762432,0.000018882403,0.00049281755],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9988148,0.00019898586,0.00042230432,0.00030136312,0.00007135646,0.0001911424],"domain_scores_gemma":[0.99908745,0.000017825747,0.00019893388,0.00035098504,0.00023643291,0.00010834536],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00014937989,0.00015597261,0.00022127038,0.0000462758,0.000065709675,0.000022725499,0.00014161438,0.00019573604,0.00000885641],"category_scores_gemma":[0.000032944154,0.00015607932,0.00012468033,0.000082501734,0.00007598071,0.0000034054183,0.00015318904,0.000087637585,0.000016687794],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008107687,0.000107489155,0.00013945712,0.00016610557,0.00017587523,0.000025307481,0.000043985354,0.0027730444,0.97089803,0.024019528,0.0012669185,0.00030317585],"study_design_scores_gemma":[0.0035298867,0.0012520886,0.0013747979,0.00048927084,0.00031211946,0.0006985914,0.0007207767,0.06780323,0.626688,0.009858232,0.28555018,0.0017228456],"about_ca_topic_score_codex":0.000025487609,"about_ca_topic_score_gemma":0.0000056974154,"teacher_disagreement_score":0.87244403,"about_ca_system_score_codex":0.000023037315,"about_ca_system_score_gemma":0.00021441435,"threshold_uncertainty_score":0.636473},"labels":[],"label_agreement":null},{"id":"W3206048415","doi":"10.15252/msb.202110335","title":"High‐efficiency delivery of CRISPR‐Cas9 by engineered probiotics enables precise microbiome editing","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":138,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Sherbrooke","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research","keywords":"CRISPR; Biology; Genome editing; Microbiome; Cas9; Computational biology; Genetics; Gene","score_opus":0.003842842298421581,"score_gpt":0.2490996015674397,"score_spread":0.24525675926901813,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3206048415","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.75789714,0.02201097,0.21827054,0.000053605054,0.0010923028,0.0002852572,0.00021361295,0.000031286054,0.00014530485],"genre_scores_gemma":[0.9966215,0.00020605783,0.0018295081,0.000045762106,0.00021647249,0.000024124487,0.00069524924,0.000045091503,0.000316251],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9982724,0.00013589313,0.00050411565,0.0005441571,0.00009935124,0.00044409206],"domain_scores_gemma":[0.99895,0.000019958617,0.0001383829,0.0005290424,0.00026663352,0.00009600729],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00020496594,0.00027286194,0.00039079518,0.00008186277,0.00004981408,0.000024376586,0.00025652713,0.00035861676,0.000011482991],"category_scores_gemma":[0.00012341101,0.00028076116,0.00014794887,0.00021109554,0.00008746115,0.000003066958,0.00018290889,0.00011425723,0.0000059455633],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000012968339,0.00007539642,0.00013476818,0.00017318153,0.00011380873,0.000020488018,0.000027899407,0.0032499328,0.9939869,0.00019159817,0.0017024956,0.0003105514],"study_design_scores_gemma":[0.00045826257,0.00023390737,0.000022738064,0.000055127075,0.000037865993,0.000101831596,0.00009958201,0.00041243323,0.9829604,0.000007763527,0.015332497,0.0002776078],"about_ca_topic_score_codex":0.000058565023,"about_ca_topic_score_gemma":0.0000066009375,"teacher_disagreement_score":0.23872437,"about_ca_system_score_codex":0.000021206657,"about_ca_system_score_gemma":0.00009483186,"threshold_uncertainty_score":0.9999645},"labels":[],"label_agreement":null},{"id":"W4212926436","doi":"10.15252/msb.202110629","title":"CFTR interactome mapping using the mammalian membrane two‐hybrid high‐throughput screening system","year":2022,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cystic Fibrosis Research Advances","field":"Medicine","cited_by":29,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Discovery Centre; University Health Network; University of Regina; Hospital for Sick Children; University of Toronto","funders":"Fundação para a Ciência e a Tecnologia; Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; Natural Sciences and Engineering Research Council of Canada; Genentech; Canada Foundation for Innovation","keywords":"Interactome; Biology; Computational biology; Throughput; Genetics; Gene; Computer science","score_opus":0.02902034291303245,"score_gpt":0.3162624901024795,"score_spread":0.287242147189447,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4212926436","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8030518,0.00523737,0.18586515,0.0009207077,0.002082448,0.0018039373,0.00013617083,0.00023221265,0.0006702011],"genre_scores_gemma":[0.9957834,0.0000041662597,0.0028556974,0.00025903387,0.00033471195,0.00020197874,0.00018294621,0.00006672948,0.00031133267],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99618584,0.0012202987,0.0006530604,0.0006353929,0.0005491196,0.0007562894],"domain_scores_gemma":[0.99835753,0.00021314627,0.00027941816,0.000830397,0.00014769632,0.00017182317],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0011300562,0.00029586072,0.0006923727,0.00030426664,0.00052259717,0.00006935329,0.0004842195,0.000060571027,0.00008146581],"category_scores_gemma":[0.00018742216,0.00022305548,0.00019263929,0.000526756,0.00018915939,0.000069305745,0.0006284922,0.0006338324,0.00003404639],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00028061276,0.000051172603,0.0012601424,0.00068871444,0.0003776985,0.0016076018,0.00020499795,0.008551144,0.9799452,0.0058692344,0.00019208479,0.0009714081],"study_design_scores_gemma":[0.013304353,0.003488253,0.0013383863,0.0031515672,0.0006952438,0.04887289,0.025244968,0.38567388,0.1110405,0.00015685763,0.40467018,0.0023629214],"about_ca_topic_score_codex":0.0018778635,"about_ca_topic_score_gemma":0.0000069886496,"teacher_disagreement_score":0.8689047,"about_ca_system_score_codex":0.00052531407,"about_ca_system_score_gemma":0.00016757277,"threshold_uncertainty_score":0.9095939},"labels":[],"label_agreement":null},{"id":"W4280588204","doi":"10.15252/msb.202110823","title":"Human phospho‐signaling networks of SARS‐CoV‐2 infection are rewired by population genetic variants","year":2022,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"interferon and immune responses","field":"Immunology and Microbiology","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto; Ontario Institute for Cancer Research","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Biology; Genetics; Population; Virology; Computational biology; Demography","score_opus":0.013283003919540194,"score_gpt":0.251409328277322,"score_spread":0.2381263243577818,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4280588204","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.97962075,0.010828748,0.0071252757,0.00002224471,0.0018261927,0.00035199372,0.000051110033,0.00006253727,0.00011112214],"genre_scores_gemma":[0.9988133,0.000019740924,0.0000108850645,0.000107307445,0.000019540115,0.00008994874,0.00050129654,0.000027470263,0.00041055103],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9970837,0.0016443924,0.0005622455,0.00033933643,0.000037575635,0.00033274517],"domain_scores_gemma":[0.9991196,0.000036020865,0.00044395385,0.00032550134,0.00006344081,0.000011526909],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00036295093,0.00019040144,0.0004341007,0.00016154035,0.000313846,0.000010238563,0.00020100875,0.00028099678,0.00013135868],"category_scores_gemma":[0.000037497335,0.00019491513,0.00012513626,0.00018251796,0.000084432664,0.000023841265,0.00015115392,0.0002949267,0.000019746923],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0001373658,0.00010425991,0.00845994,0.000020178935,0.000202629,0.000007689095,0.000054382817,0.0008492397,0.9878582,0.00047314967,0.0014501512,0.00038282876],"study_design_scores_gemma":[0.0039154547,0.0026609153,0.05407275,0.00014076332,0.0001879385,0.0006669108,0.00031095603,0.00094674825,0.90637964,0.00014757222,0.029694844,0.00087552815],"about_ca_topic_score_codex":0.0030521376,"about_ca_topic_score_gemma":0.000013810706,"teacher_disagreement_score":0.081478566,"about_ca_system_score_codex":0.000097987206,"about_ca_system_score_gemma":0.000019866882,"threshold_uncertainty_score":0.7948408},"labels":[],"label_agreement":null},{"id":"W4281677340","doi":"10.15252/msb.202110441","title":"Growth‐dependent heterogeneity in the DNA damage response in Escherichia coli","year":2022,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"DNA Repair Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":35,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Waterloo","funders":"Biotechnology and Biological Sciences Research Council; Engineering and Physical Sciences Research Council; Medical Research Council; UK Research and Innovation; Natural Sciences and Engineering Research Council of Canada; Darwin Trust of Edinburgh; Wellcome Trust","keywords":"Biology; Escherichia coli; DNA damage; DNA; Genetics; SOS response; Escherichia coli Proteins; Computational biology; Gene","score_opus":0.010165362175931468,"score_gpt":0.24678126825476024,"score_spread":0.23661590607882876,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4281677340","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99624836,0.0010618396,0.00083300966,0.0002708678,0.00045067564,0.00072393846,0.000048140013,0.000017871344,0.00034530743],"genre_scores_gemma":[0.99809724,0.000011233507,0.000065093365,0.00089361554,0.00004522628,0.0006424206,0.00011659102,0.000032520285,0.00009604492],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.994232,0.0040795095,0.00041341013,0.0006150786,0.00020356673,0.0004564531],"domain_scores_gemma":[0.9989984,0.000043288004,0.00012537549,0.0007460217,0.00003491704,0.00005197693],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002478582,0.00022642768,0.0002716534,0.00014668808,0.00010387706,0.000025089344,0.00074210536,0.00019893901,0.000013336953],"category_scores_gemma":[0.00017901196,0.00020063369,0.000111501744,0.0003103302,0.000068302266,0.0000027488202,0.00049939094,0.0002978351,0.000010047578],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00052470167,0.0001299323,0.0030302135,0.000013413445,0.00002832351,0.000257178,0.00012239578,0.00049471535,0.99410945,0.0011729938,0.00009572932,0.00002096077],"study_design_scores_gemma":[0.003211825,0.0033234844,0.01422777,0.000020642336,0.000027750626,0.00040087907,0.0019833758,0.0009724185,0.9501566,0.00041091305,0.024333,0.00093133457],"about_ca_topic_score_codex":0.00033348685,"about_ca_topic_score_gemma":0.000146322,"teacher_disagreement_score":0.043952834,"about_ca_system_score_codex":0.000107185384,"about_ca_system_score_gemma":0.000107248015,"threshold_uncertainty_score":0.8181604},"labels":[],"label_agreement":null},{"id":"W4308913774","doi":"10.15252/msb.202110886","title":"Synthetic gene circuits for cell state detection and protein tuning in human pluripotent stem cells","year":2022,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":15,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia; University of Toronto","funders":"Canadian Institutes of Health Research; ETH Zürich Foundation; Canada First Research Excellence Fund; Canada Research Chairs; Royal Academy of Engineering; Banting Research Foundation; Stavros Niarchos Foundation; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; University of Toronto; Michael Smith Health Research BC; National Science Foundation","keywords":"Biology; Induced pluripotent stem cell; Cell biology; Stem cell; Computational biology; Gene; Genetics; Embryonic stem cell","score_opus":0.006967167043624431,"score_gpt":0.24694619173557625,"score_spread":0.23997902469195181,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4308913774","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8601988,0.0031430542,0.13545386,0.000010065991,0.00023179919,0.00086922,0.000038419716,0.000014776991,0.000039998566],"genre_scores_gemma":[0.99877787,0.000015660551,0.00009019744,0.00002383601,0.000042876494,0.00065967906,0.00003902388,0.00003760999,0.00031323187],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9986727,0.00018327861,0.00028137502,0.00047332977,0.00006925684,0.0003200484],"domain_scores_gemma":[0.9995586,0.000007593422,0.000085089014,0.0002595214,0.000029989731,0.000059179558],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00034962385,0.00017138929,0.00020153154,0.00010990698,0.0001335048,0.000017475826,0.00013378038,0.00009781926,0.0000017775137],"category_scores_gemma":[0.000005959129,0.00019204765,0.00006140613,0.00008070036,0.00003022523,0.0000014480701,0.00014801108,0.000112046044,6.045832e-7],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000017248458,0.000028564813,0.000065114,0.0000929991,0.000020641985,0.000009882766,0.000058722428,0.008750926,0.9895641,0.000023264163,0.000004645342,0.0013638744],"study_design_scores_gemma":[0.00069412496,0.00067379524,0.000044051245,0.000010992962,0.000010796512,0.000039967024,0.00012396573,0.0029365653,0.98925656,0.00002447672,0.0059512667,0.00023344532],"about_ca_topic_score_codex":0.00007574633,"about_ca_topic_score_gemma":0.00001730617,"teacher_disagreement_score":0.13857909,"about_ca_system_score_codex":0.00004154191,"about_ca_system_score_gemma":0.000023187005,"threshold_uncertainty_score":0.78314763},"labels":[],"label_agreement":null},{"id":"W4323804541","doi":"10.15252/msb.202211024","title":"Phosphorylation‐linked complex profiling identifies assemblies required for Hippo signal integration","year":2023,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Hippo pathway signaling and YAP/TAZ","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Branco Weiss Fellowship – Society in Science; Marie Curie; European Federation of Pharmaceutical Industries and Associations; European Molecular Biology Organization; McGill University; Francis Crick Institute","keywords":"YAP1; Phosphorylation; Biology; Hippo signaling pathway; Protein phosphorylation; Cell biology; Computational biology; Immunoprecipitation; Phosphoproteomics; Protein–protein interaction; Phosphorylation cascade; Signal transduction; Biochemistry; Protein kinase A; Transcription factor; Gene","score_opus":0.04453826619671372,"score_gpt":0.30381340966104736,"score_spread":0.25927514346433367,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4323804541","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.840695,0.0010974249,0.15583712,0.0001377165,0.0007780671,0.00084840937,0.00013183331,0.00015758137,0.0003168332],"genre_scores_gemma":[0.9926654,0.00003198488,0.0008560895,0.00010548645,0.0003592995,0.00039653486,0.004615973,0.000052184907,0.000917017],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99803185,0.00026511544,0.0005044608,0.00060881115,0.00013464304,0.00045510137],"domain_scores_gemma":[0.998972,0.00005606246,0.0002042064,0.0003933631,0.00029067727,0.00008370539],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00074510375,0.00026497885,0.00033291703,0.00017423266,0.00021570532,0.00008132323,0.00026606696,0.00038692344,0.000007543586],"category_scores_gemma":[0.00024208167,0.00025053296,0.00019661697,0.00026425373,0.0001086977,0.0000070608257,0.00009108784,0.000097074524,0.00006422145],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00007535864,0.000019589004,0.00029053082,0.00006538879,0.000102545186,0.0000055528335,0.00006682633,0.0008783358,0.9947689,0.0021653827,0.00060499174,0.00095656415],"study_design_scores_gemma":[0.00075182924,0.00047640826,0.00022629074,0.000049109578,0.000041348336,0.000018104223,0.0003740784,0.015310091,0.9694743,0.00080504455,0.012056615,0.0004167715],"about_ca_topic_score_codex":0.000045094723,"about_ca_topic_score_gemma":0.000013202765,"teacher_disagreement_score":0.15498102,"about_ca_system_score_codex":0.000026997423,"about_ca_system_score_gemma":0.00009560099,"threshold_uncertainty_score":0.9999947},"labels":[],"label_agreement":null},{"id":"W4386817664","doi":"10.15252/msb.202311933","title":"Turning up the heat on essential E. coli genes","year":2023,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Terry Fox Research Institute","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Biology; Gene; Genetics; Computational biology","score_opus":0.008366491547167388,"score_gpt":0.3074858461062463,"score_spread":0.2991193545590789,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4386817664","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9711724,0.0038180663,0.021385897,0.0002854206,0.0022137433,0.0003207711,0.000018776786,0.00007502932,0.0007098993],"genre_scores_gemma":[0.99803996,0.00016962251,0.00001609179,0.00019318365,0.0004756067,0.00008419826,0.00016448436,0.000034411292,0.00082241383],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99880767,0.00014751035,0.00020665195,0.00037311198,0.000094753166,0.00037030695],"domain_scores_gemma":[0.999368,0.000023347544,0.000033743323,0.00047070606,0.000043449716,0.00006074114],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00025211557,0.00018482636,0.00017015441,0.00006869994,0.00011775835,0.000031297586,0.000260264,0.00019634489,0.000006314714],"category_scores_gemma":[0.00005841163,0.00013730684,0.00011163355,0.00017464957,0.00007164334,8.772782e-7,0.00013379543,0.00010378764,0.00009768769],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00001886786,0.000006596666,0.00020886293,0.000017857481,0.00006942266,0.000012977012,0.000032710108,0.01630643,0.9799348,0.00063432136,0.0021970673,0.0005600638],"study_design_scores_gemma":[0.0005518753,0.00037165819,0.00091746025,0.000028808123,0.000029316825,0.00007009712,0.00019898286,0.004953388,0.81177187,0.00003706563,0.18069111,0.00037837913],"about_ca_topic_score_codex":0.00005362678,"about_ca_topic_score_gemma":0.0000073032793,"teacher_disagreement_score":0.17849405,"about_ca_system_score_codex":0.000009430896,"about_ca_system_score_gemma":0.00002815416,"threshold_uncertainty_score":0.5599211},"labels":[],"label_agreement":null},{"id":"W4388852098","doi":"10.15252/msb.202311801","title":"A multi‐layered network model identifies Akt1 as a common modulator of neurodegeneration","year":2023,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":11,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"Canadian Institutes of Health Research; Ministry of Science and ICT, South Korea; National Research Foundation of Korea; Korea University; National Research Foundation; Government of Canada","keywords":"Biology; Neurodegeneration; Disease; Neuroscience; Spinocerebellar ataxia; AKT1; Cellular model; Bioinformatics; Ataxia; Computational biology; Signal transduction; PI3K/AKT/mTOR pathway; Genetics; Medicine; Internal medicine","score_opus":0.013786880514834102,"score_gpt":0.3242981701675886,"score_spread":0.3105112896527545,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4388852098","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.81031144,0.001859977,0.18684433,0.000040325223,0.00051173626,0.00027929904,0.000025293233,0.000049754428,0.000077862074],"genre_scores_gemma":[0.9981383,0.00010389013,0.00068454875,0.00006715688,0.00015427635,0.00007328349,0.00031445437,0.000041454714,0.00042261305],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99864066,0.00012960477,0.00038261776,0.00040822005,0.00009756489,0.00034132265],"domain_scores_gemma":[0.99923307,0.000009495636,0.000108878696,0.0004911634,0.00008663975,0.00007076077],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002403722,0.00019596859,0.00028613728,0.000087289896,0.000059488102,0.00001883139,0.00021357626,0.00024796996,0.0000013727345],"category_scores_gemma":[0.00006010157,0.00019963576,0.00012483765,0.00021343624,0.000053951255,0.0000025146953,0.00015275498,0.00007532321,0.000020331505],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000013920003,0.000011330126,0.00052453706,0.00003129466,0.000044007233,0.000004450834,0.000018966595,0.3748497,0.62371063,0.00033576234,0.00036264842,0.000092721486],"study_design_scores_gemma":[0.00048804536,0.00020208096,0.00046057114,0.000024549825,0.000024397259,0.000025288879,0.000035483088,0.49566367,0.5016307,0.00015816605,0.0010212042,0.00026581078],"about_ca_topic_score_codex":0.00008709919,"about_ca_topic_score_gemma":0.000030505349,"teacher_disagreement_score":0.18782692,"about_ca_system_score_codex":0.000008213826,"about_ca_system_score_gemma":0.0000423714,"threshold_uncertainty_score":0.81409097},"labels":[],"label_agreement":null},{"id":"W4392889350","doi":"10.1038/s44320-024-00029-6","title":"PIFiA: self-supervised approach for protein functional annotation from single-cell imaging data","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cell Image Analysis Techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Toronto Metropolitan University; Vector Institute; University of Toronto","funders":"Canadian Institutes of Health Research; National Human Genome Research Institute; Ministère des Services à l'enfance et des Services sociaux et communautaires, Gouvernement de l’Ontario; Canadian Institute for Advanced Research; Vector Institute; Government of Ontario; National Institutes of Health; Government of Canada; Nvidia","keywords":"Biology; Annotation; Computational biology; Bioinformatics","score_opus":0.019761421809780848,"score_gpt":0.25340130791043497,"score_spread":0.23363988610065411,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4392889350","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.061535973,0.011345857,0.9241238,0.00007786163,0.00016476393,0.0009868558,0.0002165757,0.00019799396,0.0013502904],"genre_scores_gemma":[0.95284224,0.000021851356,0.026267538,0.00012781651,0.00049110514,0.0003974604,0.019436745,0.000066361084,0.00034890545],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99789363,0.00020937053,0.00037353893,0.0011091678,0.00011422078,0.00030006317],"domain_scores_gemma":[0.9986596,0.000019913336,0.000091512484,0.0010234275,0.00014331423,0.00006224562],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004082122,0.00025405837,0.00025784987,0.0001224498,0.00007258281,0.00013804389,0.0004422495,0.00023959411,0.000007740837],"category_scores_gemma":[0.000064351225,0.00024219674,0.00014606946,0.00015798694,0.000065041764,0.00001523742,0.0002630696,0.000112798174,0.0000118039015],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000021601178,0.00010245634,0.00011951095,0.00013319559,0.0002060692,0.000010203605,0.000016605822,0.000038613925,0.99085647,0.00011091766,0.0058402936,0.002544088],"study_design_scores_gemma":[0.0005488289,0.00020494056,0.000011030078,0.000038564467,0.00021071652,0.000029618779,0.00008944237,0.1869064,0.71596396,0.00013105808,0.095385954,0.00047948348],"about_ca_topic_score_codex":0.00013953583,"about_ca_topic_score_gemma":0.0000045557845,"teacher_disagreement_score":0.8978563,"about_ca_system_score_codex":0.000038598962,"about_ca_system_score_gemma":0.00009070578,"threshold_uncertainty_score":0.9876496},"labels":[],"label_agreement":null},{"id":"W4392913712","doi":"10.1038/s44320-024-00030-z","title":"Mutational biases favor complexity increases in protein interaction networks after gene duplication","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":13,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval; PROTEO","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada; Fonds de recherche du Québec; HORIZON EUROPE European Research Council; Agencia Mexicana de Cooperación Internacional para el Desarrollo; Israel Science Foundation; Abisch-Frenkel-Stiftung; Canadian Institutes of Health Research; Mitacs","keywords":"Gene duplication; Homomeric; Biology; Gene; Negative selection; Computational biology; Genetics; Protein quaternary structure; Natural selection; Selection (genetic algorithm); Biophysics; Genome; Computer science","score_opus":0.015735615815956356,"score_gpt":0.2845965019606399,"score_spread":0.26886088614468356,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4392913712","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.83953464,0.0062727635,0.153139,0.00010793971,0.0002729567,0.00042458865,0.000056062647,0.000035542966,0.00015649639],"genre_scores_gemma":[0.9970822,0.000050595998,0.00043921173,0.00014260555,0.00020908126,0.0003532219,0.0015145907,0.000023991504,0.00018454081],"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","domain_scores_codex":[0.9986612,0.00025787152,0.0003227876,0.00045842968,0.00007344548,0.00022625628],"domain_scores_gemma":[0.9995392,0.000018458888,0.000061013714,0.0002512655,0.00007081422,0.000059232465],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00020967802,0.00016719439,0.00015576242,0.00012519499,0.00003336478,0.00004608771,0.00011242101,0.00022817898,0.000016265254],"category_scores_gemma":[0.00007752049,0.00016249479,0.00008150651,0.0001819604,0.00010320513,0.0000052750165,0.000072879426,0.00011666978,0.000026459758],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00021388977,0.00017304525,0.0052330843,0.00011692153,0.00014586041,0.000084706335,0.000029211229,0.02456484,0.9583216,0.008679983,0.00034929303,0.0020875891],"study_design_scores_gemma":[0.0015847534,0.0010346398,0.04788049,0.0005606563,0.00008280002,0.00083724223,0.00018471746,0.8624002,0.047316104,0.0014992739,0.03518687,0.0014323054],"about_ca_topic_score_codex":0.0003238302,"about_ca_topic_score_gemma":0.00020700207,"teacher_disagreement_score":0.9110055,"about_ca_system_score_codex":0.000052390773,"about_ca_system_score_gemma":0.00006972383,"threshold_uncertainty_score":0.6626345},"labels":[],"label_agreement":null},{"id":"W4393979338","doi":"10.1038/s44320-024-00032-x","title":"Genome-wide CRISPR screens identify novel regulators of wild-type and mutant p53 stability","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Cancer-related Molecular Pathways","field":"Medicine","cited_by":23,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Hospital for Sick Children; Lunenfeld-Tanenbaum Research Institute; University of Toronto; Mount Sinai Hospital","funders":"Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; Conselho Nacional de Desenvolvimento Científico e Tecnológico; University of Toronto; Government of Ontario; Weizmann Institute of Science; Canada Research Chairs; International Development Research Centre","keywords":"Mutant; Biology; CRISPR; Wild type; Regulator; Loss function; Gene; Suppressor; Genetics; Cancer; Cell biology; Cancer research; Phenotype","score_opus":0.020016464359551425,"score_gpt":0.2806485574929753,"score_spread":0.2606320931334239,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4393979338","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.940935,0.02713579,0.028878288,0.0002871646,0.0011359089,0.0009011791,0.00008968603,0.00014146982,0.00049551943],"genre_scores_gemma":[0.99916387,0.00012531846,0.0002484761,0.00011563338,0.000090454014,0.000025579386,0.00009964817,0.00006326206,0.00006779216],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9978011,0.00017622663,0.00066630717,0.0007239691,0.0002341149,0.00039826756],"domain_scores_gemma":[0.99855477,0.000078923986,0.0001313234,0.0007400371,0.00029860938,0.00019634388],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0005822918,0.00028286577,0.00069510395,0.00027684873,0.000043541902,0.00002826265,0.0001328864,0.00039457594,0.00002951813],"category_scores_gemma":[0.0003570773,0.0002500332,0.00016305635,0.00060726656,0.00031250188,0.000037853264,0.00013537274,0.00032389874,0.000020066922],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00009888591,0.000059058668,0.0045942743,0.00076653383,0.00043537767,0.00024376006,0.00017366267,0.000028801756,0.99128896,0.0019630035,0.000063290296,0.00028438703],"study_design_scores_gemma":[0.0047319173,0.0032934004,0.06338837,0.0022521885,0.0017508648,0.003258332,0.00078320963,0.005684494,0.8342789,0.0004882439,0.07863358,0.0014565134],"about_ca_topic_score_codex":0.0005640424,"about_ca_topic_score_gemma":0.000028648756,"teacher_disagreement_score":0.15701008,"about_ca_system_score_codex":0.00017003973,"about_ca_system_score_gemma":0.00029866697,"threshold_uncertainty_score":0.9999952},"labels":[],"label_agreement":null},{"id":"W4396608578","doi":"10.1038/s44320-024-00037-6","title":"Systematic identification of structure-specific protein–protein interactions","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Biotin and Related Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"ETH Zürich Foundation; Eidgenössische Technische Hochschule Zürich; Parkinson Schweiz; École Polytechnique Fédérale de Lausanne; McGill University; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; European Proteomics Infrastructure Consortium providing access; European Research Council; Helmut Horten Stiftung; National Science Foundation","keywords":"Interactome; Biology; Proteome; Computational biology; Protein–protein interaction; Proteomics; Protein structure; Plasma protein binding; Cell biology; Biochemistry; Gene","score_opus":0.006503810821106221,"score_gpt":0.2484126498944258,"score_spread":0.2419088390733196,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4396608578","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.85300803,0.08487108,0.056809813,0.00019343111,0.002176978,0.0019892177,0.00012701894,0.00008449693,0.00073991163],"genre_scores_gemma":[0.9980759,0.00008928745,0.00008981951,0.000010607002,0.00013400224,0.00014773846,0.00011425596,0.000029214963,0.0013091507],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9983309,0.00028466384,0.0006461932,0.00043625952,0.00009729433,0.00020468443],"domain_scores_gemma":[0.9991848,0.000011693515,0.00018842904,0.00044700466,0.00012694817,0.00004115864],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00025010522,0.00019567965,0.0003208797,0.00013120573,0.000065421984,0.00004481776,0.00019550839,0.00028170564,0.000008192881],"category_scores_gemma":[0.00006796906,0.00015189502,0.00015343518,0.00018754324,0.0001302731,0.000003849351,0.00008231276,0.0001570498,0.000031708358],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000011582821,0.000018691913,0.000011736109,0.0037699225,0.00037340767,0.0000069158655,0.00004829765,0.000028021308,0.9853571,0.010080844,0.00018383248,0.00010966899],"study_design_scores_gemma":[0.00015600806,0.00016580152,0.000025507174,0.0018668002,0.00006166579,0.00008751341,0.00013396214,0.0002800921,0.9886575,0.00030283566,0.00802582,0.0002365429],"about_ca_topic_score_codex":0.000020478063,"about_ca_topic_score_gemma":0.000004014467,"teacher_disagreement_score":0.14506787,"about_ca_system_score_codex":0.000023914714,"about_ca_system_score_gemma":0.000036555186,"threshold_uncertainty_score":0.61940986},"labels":[],"label_agreement":null},{"id":"W4404517207","doi":"10.1038/s44320-024-00076-z","title":"Global atlas of predicted functional domains in Legionella pneumophila Dot/Icm translocated effectors","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Legionella and Acanthamoeba research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto; University of Calgary","funders":"Canadian Institutes of Health Research - Antimicrobial Resistance Research Initiative; Division of Microbiology and Infectious Diseases, National Institute of Allergy and Infectious Diseases; National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; U.S. Department of Health and Human Services; National Institutes of Health; National Science Foundation","keywords":"Effector; Legionella pneumophila; Biology; Computational biology; Secretion; Legionella; Cell biology; Genetics; Bacteria; Biochemistry","score_opus":0.009194980547396432,"score_gpt":0.26112914541579085,"score_spread":0.25193416486839443,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4404517207","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98243344,0.007576903,0.0070732767,0.0002181385,0.00093752664,0.0005078044,0.00015392977,0.000043787397,0.0010552176],"genre_scores_gemma":[0.99867195,0.00015281924,0.000019390094,0.000042285206,0.00022912638,0.00007943408,0.00061592896,0.000029821205,0.0001592442],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99788433,0.00036664068,0.0004585298,0.0006403184,0.00020037498,0.0004497856],"domain_scores_gemma":[0.99932295,0.000032341366,0.000059455277,0.00037048289,0.000100516416,0.00011424159],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00035891338,0.00025529863,0.0003447212,0.00017938582,0.00003959188,0.000029317513,0.00026259982,0.00045990892,0.000006573412],"category_scores_gemma":[0.000050745453,0.00022038448,0.00019112063,0.0005794237,0.00024043069,0.0000046819764,0.00009392061,0.00016779633,0.000017140992],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00018276303,0.000085927546,0.01216075,0.00024958744,0.00020761212,0.00014190101,0.000025257397,0.0008917827,0.981115,0.0036079017,0.0010396346,0.00029188907],"study_design_scores_gemma":[0.0098976055,0.0050895987,0.04099423,0.0011830536,0.00028220192,0.0017614611,0.00026946343,0.012779475,0.7672559,0.0016812097,0.15623999,0.0025658016],"about_ca_topic_score_codex":0.00048048454,"about_ca_topic_score_gemma":0.00009904132,"teacher_disagreement_score":0.21385908,"about_ca_system_score_codex":0.00006244341,"about_ca_system_score_gemma":0.00022147362,"threshold_uncertainty_score":0.8987018},"labels":[],"label_agreement":null},{"id":"W4405323449","doi":"10.1038/s44320-024-00081-2","title":"A split intein and split luciferase-coupled system for detecting protein-protein interactions","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Protein Degradation and Inhibitors","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Public Health Ontario; University of Toronto","funders":"Ontario Genomics; Genome Canada","keywords":"Intein; Computational biology; Drug discovery; RNA splicing; Biology; Operability; Combinatorial chemistry; Computer science; Bioinformatics; Chemistry; Biochemistry; Software engineering","score_opus":0.010294980146406445,"score_gpt":0.2640113660461783,"score_spread":0.25371638589977186,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4405323449","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.7902042,0.006661882,0.19916101,0.00022814918,0.0009748809,0.002170733,0.000066533634,0.0001588048,0.00037375672],"genre_scores_gemma":[0.99520296,0.000007924196,0.0012282046,0.00005096245,0.00047052695,0.0014878424,0.00018450129,0.00006639065,0.001300686],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99800706,0.00021174742,0.0005018344,0.0007861284,0.00009448551,0.00039874937],"domain_scores_gemma":[0.9991467,0.000027477881,0.0001260676,0.00043246584,0.0001391615,0.00012815588],"candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00050245266,0.0003079681,0.00031764168,0.00017575832,0.00015771792,0.00016654235,0.00018769252,0.0003030819,0.0000068550507],"category_scores_gemma":[0.00023856993,0.00028085095,0.0001741623,0.00016511614,0.00009172656,0.000011715434,0.00013936147,0.00019297162,0.000024735005],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000071714625,0.00001552675,0.000021644319,0.00059438177,0.00014195508,0.000013968607,0.000026041393,0.000008569427,0.98116666,0.014930114,0.00011266404,0.0028967808],"study_design_scores_gemma":[0.00066327915,0.0006024761,0.000011440526,0.00073482905,0.000049282473,0.0002496856,0.0002681171,0.010293087,0.911613,0.00020037209,0.07480983,0.0005046266],"about_ca_topic_score_codex":0.00014833365,"about_ca_topic_score_gemma":0.000020991409,"teacher_disagreement_score":0.20499872,"about_ca_system_score_codex":0.00007470715,"about_ca_system_score_gemma":0.000090990776,"threshold_uncertainty_score":0.99996436},"labels":[],"label_agreement":null},{"id":"W4405986800","doi":"10.1038/s44320-024-00074-1","title":"High order expression dependencies finely resolve cryptic states and subtypes in single cell data","year":2025,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Institute of Genetics; Medical Research Council; UK Research and Innovation","keywords":"Biology; Computational biology; Expression (computer science); Genetics; Single-cell analysis; Cell; Computer science","score_opus":0.014515951699253802,"score_gpt":0.23808758324826831,"score_spread":0.22357163154901452,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4405986800","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9659049,0.011816744,0.020979736,0.00010795904,0.00045955917,0.00026078385,0.00006391648,0.000018133695,0.00038826917],"genre_scores_gemma":[0.99698555,0.000353526,0.0012770258,0.00019677523,0.00005079669,0.000021150556,0.00070298044,0.000019772513,0.00039242697],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9984848,0.00020552648,0.00032218872,0.0006245059,0.000064355125,0.00029860524],"domain_scores_gemma":[0.9991243,0.000032328913,0.00007420957,0.0006459276,0.000074461,0.000048754904],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00022671162,0.00020414653,0.00027227253,0.000105037485,0.000058779522,0.000043147968,0.00037389138,0.00030131332,0.000004146371],"category_scores_gemma":[0.000092036695,0.00018194923,0.000029515648,0.00014297197,0.00011104053,0.000006128302,0.00030476047,0.000117063944,0.0000034026252],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00007508479,0.00008468581,0.0075663878,0.000095417185,0.00002622165,0.000015464597,0.000029705021,0.00020760894,0.9909892,0.00019422997,0.00043467066,0.00028131402],"study_design_scores_gemma":[0.0014726795,0.00038935724,0.0013565031,0.000116673895,0.000035651065,0.000011731057,0.00019326559,0.0011478089,0.97629094,0.00031645407,0.018270122,0.00039878435],"about_ca_topic_score_codex":0.0008274029,"about_ca_topic_score_gemma":0.00027047517,"teacher_disagreement_score":0.031080648,"about_ca_system_score_codex":0.00001565238,"about_ca_system_score_gemma":0.000071612405,"threshold_uncertainty_score":0.74196744},"labels":[],"label_agreement":null},{"id":"W4406087143","doi":"10.1038/s44320-024-00080-3","title":"Author Correction: Systematic protein-protein interaction mapping for clinically relevant human GPCRs","year":2025,"lang":"en","type":"erratum","venue":"Molecular Systems Biology","topic":"Receptor Mechanisms and Signaling","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; University of Regina; Princess Margaret Cancer Centre; Institute for Research in Immunology and Cancer; University Health Network; University of Toronto","funders":"","keywords":"Biology; G protein-coupled receptor; Computational biology; Bioinformatics; Genetics; Receptor","score_opus":0.022944040843938366,"score_gpt":0.31393005221528436,"score_spread":0.290986011371346,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4406087143","genre_codex":"methods","genre_gemma":"other","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"methods","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.010100418,0.016488086,0.795491,0.000496867,0.1484411,0.01913133,0.00031185243,0.00029880324,0.009240557],"genre_scores_gemma":[0.24234053,0.0001150102,0.002446099,0.00036998617,0.0062519824,0.009734014,0.008142327,0.0003531579,0.7302469],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99441564,0.0011102426,0.0020202647,0.001505497,0.00024567885,0.0007026603],"domain_scores_gemma":[0.99656814,0.00005747766,0.0014658696,0.0011749894,0.0005772296,0.00015628578],"candidate_categories":["metaepi_narrow","research_integrity"],"consensus_categories":[],"category_scores_codex":[0.0016433304,0.0007764492,0.0015477164,0.00034094806,0.0003465025,0.00015922767,0.0006908603,0.0025675907,0.000025901512],"category_scores_gemma":[0.001017171,0.00072155375,0.00079355005,0.00020489463,0.00009018167,0.000006115129,0.00026980301,0.000850658,0.000022086326],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000095810195,0.00006394508,0.0000023180778,0.014986084,0.00068911276,0.000014126828,0.000027213178,0.00003996167,0.8672535,0.0015131467,0.11514569,0.00016913525],"study_design_scores_gemma":[0.0014885401,0.003629644,0.0000013043326,0.036053307,0.00051511644,0.00013608768,0.0006689982,0.0030109065,0.14621899,0.0006198718,0.8055413,0.0021159363],"about_ca_topic_score_codex":0.00012571008,"about_ca_topic_score_gemma":0.000022243614,"teacher_disagreement_score":0.79304487,"about_ca_system_score_codex":0.00016000523,"about_ca_system_score_gemma":0.000406347,"threshold_uncertainty_score":0.9995236},"labels":[],"label_agreement":null},{"id":"W4407761883","doi":"10.1038/s44320-025-00086-5","title":"Abundant clock proteins point to missing molecular regulation in the plant circadian clock","year":2025,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Plant Molecular Biology Research","field":"Agricultural and Biological Sciences","cited_by":4,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Biotechnology and Biological Sciences Research Council; Directorate for Biological Sciences; Shimane University; Consejo Nacional de Ciencia y Tecnología; European Commission; UK Research and Innovation; Deutsche Forschungsgemeinschaft; York University","keywords":"Biology; Circadian clock; Molecular clock; Circadian rhythm; Biological clock; Computational biology; Oscillating gene; Cell biology; Bacterial circadian rhythms; Genetics; Neuroscience; Gene","score_opus":0.017773928179251917,"score_gpt":0.2512125261848606,"score_spread":0.2334385980056087,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4407761883","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.97720486,0.0013340012,0.003471184,0.012600824,0.00029044168,0.0026062774,0.00008563651,0.000067838686,0.0023389463],"genre_scores_gemma":[0.99706393,0.000007951325,0.00010957366,0.001963663,0.000070932656,0.0003389943,0.00031625418,0.0000029028179,0.00012580247],"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","domain_scores_codex":[0.99635327,0.001478946,0.00050228287,0.0006970891,0.00023057553,0.00073781575],"domain_scores_gemma":[0.99920934,0.00019072508,0.0001043857,0.00028106762,0.00008775745,0.00012674232],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00121658,0.00027718997,0.00039007814,0.00013641547,0.00021859129,0.000120612836,0.00083830184,0.00038271854,0.000017415074],"category_scores_gemma":[0.00025621208,0.000114048264,0.00013174879,0.0009833244,0.00011389199,0.00003377907,0.00018661837,0.0003457471,0.000060723913],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000052115247,0.000059046666,0.0028237812,0.000022396634,0.000034695768,0.0001971891,0.000077621815,0.00007887864,0.97283506,0.019887006,0.00047941794,0.0034528032],"study_design_scores_gemma":[0.0021089416,0.0029736187,0.2076012,0.0009946277,0.000113009744,0.0012463747,0.0016053328,0.0046051163,0.32568195,0.011458326,0.43909076,0.0025207414],"about_ca_topic_score_codex":0.0015251002,"about_ca_topic_score_gemma":0.0006808542,"teacher_disagreement_score":0.6471531,"about_ca_system_score_codex":0.000102208374,"about_ca_system_score_gemma":0.0000542977,"threshold_uncertainty_score":0.4650753},"labels":[],"label_agreement":null},{"id":"W4409335107","doi":"10.1038/s44320-025-00095-4","title":"Constraints on the optimization of gene product diversity","year":2025,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"RNA regulation and disease","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; Natural Sciences and Engineering Research Council of Canada; Agence Nationale de la Recherche","keywords":"Biology; Selection (genetic algorithm); Computational biology; Adaptation (eye); Genetics; Evolutionary biology; Population; Gene; Adaptive evolution; Negative selection; Phenotype; Computer science; Genome; Machine learning","score_opus":0.009203105125333948,"score_gpt":0.23252963743657784,"score_spread":0.22332653231124389,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4409335107","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.8091474,0.0015873238,0.1757291,0.0008498304,0.00057040463,0.0006762688,0.000054728724,0.00001836133,0.011366546],"genre_scores_gemma":[0.9990111,0.000013845757,0.00013392935,0.00038530983,0.000030423984,0.000013862493,0.00009082056,0.0000045522847,0.0003161733],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9992734,0.00018934795,0.00015266553,0.00022399478,0.000055078803,0.00010550835],"domain_scores_gemma":[0.9994348,0.000010516274,0.00007998529,0.00034548095,0.00010180543,0.00002735808],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00015983725,0.00008759837,0.00010974174,0.000045158446,0.000086974,0.0000068612553,0.00016578299,0.00008611358,0.000017583603],"category_scores_gemma":[0.00012823641,0.0000640678,0.000065268374,0.00009425585,0.00017977656,8.8418506e-7,0.00010811001,0.00003228504,0.000003098019],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00012826257,0.000094044015,0.011711666,0.00004202947,0.00018903491,0.0000035537614,0.000019603825,0.026698364,0.9282581,0.029874422,0.001952757,0.0010281353],"study_design_scores_gemma":[0.0021815558,0.00051483593,0.013281593,0.00009160347,0.00013559058,0.000020585105,0.00022481484,0.0066086906,0.9645086,0.00032265266,0.011582961,0.0005265372],"about_ca_topic_score_codex":0.000018626251,"about_ca_topic_score_gemma":8.4885164e-7,"teacher_disagreement_score":0.18986365,"about_ca_system_score_codex":0.000008469389,"about_ca_system_score_gemma":0.000055326116,"threshold_uncertainty_score":0.2612609},"labels":[],"label_agreement":null},{"id":"W4410283643","doi":"10.1038/s44320-025-00106-4","title":"Metabolic mapping of the human solute carrier superfamily","year":2025,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Effects and risks of endocrine disrupting chemicals","field":"Environmental Science","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"European Commission","keywords":"Biology; Metabolomics; Solute carrier family; Transcriptome; Computational biology; Metabolic pathway; SUPERFAMILY; Function (biology); Biochemistry; Transporter; Cell biology; Gene; Gene expression; Bioinformatics","score_opus":0.00840021648958096,"score_gpt":0.3025911222246605,"score_spread":0.29419090573507956,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4410283643","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98428905,0.001272612,0.0004963023,0.00013226674,0.0003452878,0.00022121788,0.000007821633,0.000017178116,0.013218246],"genre_scores_gemma":[0.99905866,0.000007963295,0.000046181696,0.00016379662,0.00001582006,0.000019966525,0.0000032914936,0.0000065060426,0.000677785],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99908346,0.00017099954,0.00023049428,0.00022067282,0.00007663461,0.00021776081],"domain_scores_gemma":[0.99949,0.00003097746,0.00007400435,0.00036994982,0.000009092831,0.000025978667],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00019316968,0.00010400081,0.00022280854,0.000026970118,0.00009579493,0.000007914631,0.00034622848,0.00007105601,0.000031341562],"category_scores_gemma":[0.000057488414,0.000064316606,0.00010511523,0.00020167942,0.00021545512,0.000016519047,0.00030448879,0.00009316632,0.000011247699],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[6.7629117e-7,0.00001200004,0.066953264,0.000021657448,0.000031318512,0.0000017086618,0.000034418495,0.000121212295,0.92764735,0.004459427,0.00043402863,0.00028290396],"study_design_scores_gemma":[0.00069744274,0.00004989144,0.14382133,0.00016665991,0.00009197868,0.00001580862,0.00016838261,0.00049658876,0.74170524,0.0011696732,0.11126309,0.00035391736],"about_ca_topic_score_codex":0.001976892,"about_ca_topic_score_gemma":0.000013406296,"teacher_disagreement_score":0.18594214,"about_ca_system_score_codex":0.000022462775,"about_ca_system_score_gemma":0.0000074929844,"threshold_uncertainty_score":0.29884824},"labels":[],"label_agreement":null},{"id":"W4413623775","doi":"10.1038/s44320-025-00138-w","title":"When biomedical discovery faces data barriers: building a governance-empowered framework for resilient collaboration","year":2025,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Ethics in Clinical Research","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":true,"ca_institutions":"","funders":"","keywords":"Biology; Corporate governance; Data science; Computational biology; Computer science; Business","score_opus":0.14752653816257863,"score_gpt":0.5295236763712989,"score_spread":0.3819971382087203,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4413623775","genre_codex":"methods","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.07445427,0.009867855,0.8767266,0.032507136,0.0028041883,0.002194528,0.00084677903,0.00008128182,0.0005173416],"genre_scores_gemma":[0.9786552,0.00041324823,0.016952178,0.0012871011,0.000288835,0.00023285975,0.00047956716,0.000028293689,0.001662674],"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"not_applicable","domain_scores_codex":[0.9970774,0.00037008914,0.0007143279,0.00089759385,0.0004876743,0.00045290473],"domain_scores_gemma":[0.99364954,0.0039506075,0.00019224508,0.0015806376,0.00041357917,0.00021340187],"candidate_categories":["metaresearch"],"consensus_categories":[],"category_scores_codex":[0.0030892806,0.00018375949,0.0005622811,0.00012759575,0.00013123837,0.00011061371,0.0007434027,0.0010070985,0.000021111315],"category_scores_gemma":[0.052764915,0.00015037484,0.00009037551,0.00044719575,0.00044204795,0.000098514516,0.00058379665,0.000832503,0.000008448019],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00078950333,0.00013982474,0.004183181,0.0015344861,0.0005266916,0.000067616085,0.00016561385,0.000013833907,0.09205651,0.87869054,0.020969285,0.0008629323],"study_design_scores_gemma":[0.0062833503,0.0028685392,0.00093135156,0.0081943665,0.0004426484,0.000034801735,0.002406813,0.0119333,0.017640974,0.31856948,0.62988657,0.0008078031],"about_ca_topic_score_codex":0.00017464254,"about_ca_topic_score_gemma":0.00005445864,"teacher_disagreement_score":0.904201,"about_ca_system_score_codex":0.00020641627,"about_ca_system_score_gemma":0.0014788086,"threshold_uncertainty_score":0.955214},"labels":[],"label_agreement":null},{"id":"W4415928964","doi":"10.1038/s44320-025-00159-5","title":"Identification of potent high-affinity secondary nucleation inhibitors of Aβ42 aggregation from an ultra-large chemical library using deep docking","year":2025,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Alzheimer's disease research and treatments","field":"Medicine","cited_by":2,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Ottawa","funders":"UK Research and Innovation","keywords":"Drug discovery; Docking (animal); Surface plasmon resonance; Protein aggregation; Small molecule; In vitro; Fibril; Peptide library; Rational design; Chemical biology","score_opus":0.011151098509852823,"score_gpt":0.2913074026667106,"score_spread":0.2801563041568578,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4415928964","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"codex-gemma-dda1882f352a","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9904297,0.004239356,0.004243239,0.00006203379,0.00019755884,0.00049794855,0.00014358846,0.000034605146,0.00015196824],"genre_scores_gemma":[0.99838054,0.000027378206,0.00015588464,0.000031735784,0.00005229095,0.000017754595,0.0013157914,0.00001590354,0.0000027329406],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99858546,0.0002633968,0.0005265009,0.00029173098,0.0001552512,0.00017765143],"domain_scores_gemma":[0.9991476,0.00004214466,0.00026881957,0.00032148897,0.00012751324,0.00009244296],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00014541265,0.0001232183,0.00033350385,0.0001994192,0.000045071953,0.000013896701,0.00008695734,0.00018405307,0.000017153001],"category_scores_gemma":[0.00006788555,0.00011280487,0.00009220178,0.00023076308,0.000079596546,0.00013039546,0.000032270716,0.00010629241,0.0000036167683],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00028497292,0.00044779803,0.04291218,0.00024805558,0.001670529,0.000024326348,0.0000916813,0.000041263902,0.9501368,0.0014551535,0.000012596915,0.0026746434],"study_design_scores_gemma":[0.0014597732,0.00015895782,0.013996859,0.0002848213,0.00035239896,0.000005946389,0.00015203284,0.004091846,0.97884756,0.0005459411,0.00001411726,0.00008975107],"about_ca_topic_score_codex":0.00037489017,"about_ca_topic_score_gemma":0.0000020322145,"teacher_disagreement_score":0.028915321,"about_ca_system_score_codex":0.00006507624,"about_ca_system_score_gemma":0.00017485126,"threshold_uncertainty_score":0.4600049},"labels":[],"label_agreement":null}]}