{"meta":{"page":1,"per_page":50,"max_per_page":100,"total":189,"total_is_capped":false,"direct_labels_cover":0,"predictions_cover":189,"direct_label_status":"direct model label, unvalidated","prediction_status":"machine_predicted_unvalidated (Codex and Gemma teacher distillation)","score_status":"score_only:v0-immature-baseline (scores rank; they never assert a category)","snapshot":{"source":"OpenAlex, pinned release, all 482 partitions","release":"2026-06-24","frame_built":"2026-07-12"},"query_hash":"4df604a6f4db","filters":{"venue":"Journal of Molecular Evolution"}},"results":[{"id":"W2007447692","doi":"10.1007/s002390010184","title":"The Closest BLAST Hit Is Often Not the Nearest Neighbor","year":2001,"lang":"en","type":"letter","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":474,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"","keywords":"Biology; Phylogenetic tree; Gene; Genome; Genetics; Organism; Phylogenetics; Computational biology; Evolutionary biology","retraction":null,"screen_n_in":null,"score":{"opus":0.008501202531846185,"gpt":0.2193793820998509,"spread":0.2108781795680048,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004290264,0.0003192475,0.0002969526,0.00005689865,0.0003549675,0.0001042619,0.000762477,0.0004946782,0.000008559391],"category_scores_gemma":[0.0001441954,0.000189753,0.0005092035,0.0001098312,0.0002323382,0.000001469481,0.0001977456,0.0009005308,0.00001484156],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007554594,"about_ca_system_score_gemma":0.0002498144,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002787713,"about_ca_topic_score_gemma":0.00001461422,"domain_scores_codex":[0.9980519,0.0002067393,0.0005694652,0.0002739588,0.000493232,0.0004046961],"domain_scores_gemma":[0.9980736,0.00005698027,0.0007524777,0.000607796,0.0004536591,0.00005552049],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00008058262,0.00001900238,0.0001403367,0.00001330719,0.0005027645,0.00009611725,0.0000306608,0.00009718089,0.1059944,0.00002785976,0.8917969,0.001200879],"study_design_scores_gemma":[0.0003456738,0.0003494267,0.001694253,0.00003100328,0.0002084761,0.0003311784,0.00004079189,0.00001814099,0.007830756,0.0003714513,0.9885495,0.0002293368],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"commentary","genre_gemma":"commentary","genre_scores_codex":[0.09844738,0.0344023,0.002250407,0.8608049,0.002360516,0.0004517177,0.0001011959,0.000003720535,0.001177888],"genre_scores_gemma":[0.4751412,0.008611596,0.0003467552,0.4968336,0.01504481,0.00002808446,0.00007167396,0.0001590567,0.00376318],"genre_candidate":"commentary","genre_consensus":"commentary","teacher_disagreement_score":0.3766938,"threshold_uncertainty_score":0.7737902,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2088187175","doi":"10.1007/s00239-003-2564-9","title":"Dating the Monocot?Dicot Divergence and the Origin of Core Eudicots Using Whole Chloroplast Genomes","year":2004,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Plant Diversity and Evolution","field":"Agricultural and Biological Sciences","cited_by":444,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"National Institute of General Medical Sciences; Egg Farmers of Canada","keywords":"myr; Eudicots; Biology; Nonsynonymous substitution; Molecular clock; Phylogenetic tree; Evolutionary biology; Divergence (linguistics); Phylogenomics; Aptian; Genome; Paleontology; Cretaceous; Botany; Gene; Genetics; Taxonomy (biology)","retraction":null,"screen_n_in":null,"score":{"opus":0.02946504373823334,"gpt":0.2182440070779517,"spread":0.1887789633397184,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004497542,0.00006941567,0.0001277493,0.0000149169,0.0002914473,0.00002208309,0.0001916557,0.00004370913,0.00001008858],"category_scores_gemma":[0.00007984164,0.00002215834,0.00008560252,0.0001816728,0.000172798,0.0001571772,0.00007098036,0.0001313494,0.000001867179],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006183578,"about_ca_system_score_gemma":0.00002112129,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003121741,"about_ca_topic_score_gemma":0.00005234759,"domain_scores_codex":[0.9992774,0.00006912829,0.0002081952,0.00007626075,0.0002503203,0.0001186558],"domain_scores_gemma":[0.9994264,0.00006676204,0.0003299994,0.00003325619,0.0001059434,0.00003768777],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0002060341,0.00004450234,0.02293249,0.000007931199,0.00005025636,0.00001362789,0.0002847197,0.005614811,0.9660804,0.002613886,0.00008881752,0.002062576],"study_design_scores_gemma":[0.003909731,0.000815735,0.9355826,0.0004820736,0.0004823688,0.00118346,0.005220927,0.008651326,0.0236416,0.0163598,0.003198885,0.0004715189],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9965783,0.001660094,0.0008565008,0.0006601673,0.0001129817,0.00008271482,0.00001516686,0.000003526632,0.00003049165],"genre_scores_gemma":[0.9994897,0.00016841,0.0001989862,0.00004617457,0.00008668815,2.710865e-7,0.000003323905,4.37145e-7,0.000006030321],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9424387,"threshold_uncertainty_score":0.2241606,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1981174116","doi":"10.1007/s002390010210","title":"Dinoflagellate Nuclear SSU rRNA Phylogeny Suggests Multiple Plastid Losses and Replacements","year":2001,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Protist diversity and phylogeny","field":"Biochemistry, Genetics and Molecular Biology","cited_by":334,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of British Columbia","funders":"","keywords":"Plastid; Dinoflagellate; Biology; Peridinin; Photosynthesis; Phylogenetics; Phylogenetic tree; Botany; Protist; Ribosomal RNA; Evolutionary biology; Algae; Chloroplast; Genetics; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.006233421222851965,"gpt":0.2110930795310608,"spread":0.2048596583082088,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002154354,0.0001342559,0.0001513067,0.00007871216,0.0001117679,0.00002945978,0.0001642879,0.00013248,0.00001984871],"category_scores_gemma":[0.000150149,0.0001338002,0.0001092564,0.00008042801,0.00007467817,0.0000134561,0.0001130645,0.0001293097,0.000009584022],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003650881,"about_ca_system_score_gemma":0.00003993632,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001193568,"about_ca_topic_score_gemma":0.000004375836,"domain_scores_codex":[0.999082,0.00008198308,0.0002402872,0.0001909213,0.0002060598,0.0001987841],"domain_scores_gemma":[0.9993026,0.000009845663,0.0002401172,0.0001721431,0.0001519887,0.0001233188],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00050034,0.0000808099,0.07194272,0.00001433915,0.0001162951,0.0001188874,0.0000270525,0.0002349353,0.925073,0.0000430954,0.001422586,0.0004259476],"study_design_scores_gemma":[0.006408717,0.003104053,0.6269925,0.0001545796,0.0002861799,0.002751772,0.0002443248,0.0005860541,0.3081226,0.0007898529,0.04972879,0.0008305822],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9939843,0.001555224,0.003777832,0.00008483296,0.0001764247,0.00009939685,0.000009832048,0.000005084068,0.0003070995],"genre_scores_gemma":[0.998183,0.0004968648,0.000910522,0.0001102411,0.0001615962,6.326516e-7,0.00001159298,0.00001542431,0.0001101103],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6169504,"threshold_uncertainty_score":0.5456214,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2116335962","doi":"10.1007/s002390010233","title":"The Ghost of Selection Past: Rates of Evolution and Functional Divergence of Anciently Duplicated Genes","year":2001,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":188,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Universität Konstanz; Vlaamse regering; Deutsche Forschungsgemeinschaft; Natural Sciences and Engineering Research Council of Canada; Verband der Chemischen Industrie","keywords":"Biology; Subfunctionalization; Gene duplication; Gene; Genome; Genetics; Functional divergence; Orthologous Gene; Hox gene; Negative selection; Gene family; Evolutionary biology; Concerted evolution; Molecular evolution; Rate of evolution; Phylogenetics; Gene expression","retraction":null,"screen_n_in":null,"score":{"opus":0.008791675771671857,"gpt":0.2238701682828399,"spread":0.215078492511168,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003054023,0.00008386486,0.0001474383,0.0000623001,0.00007660072,0.000003679009,0.00008302435,0.00006665433,0.000002336408],"category_scores_gemma":[0.00007555138,0.00006511583,0.0001008341,0.000162283,0.0001471918,0.000002714185,0.00005172183,0.00004123758,1.564551e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002276318,"about_ca_system_score_gemma":0.00007866402,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002650265,"about_ca_topic_score_gemma":0.00001281159,"domain_scores_codex":[0.999149,0.0000609713,0.0003940423,0.0001061347,0.0001830721,0.000106819],"domain_scores_gemma":[0.9986423,0.00001646254,0.0005343308,0.0001028212,0.000672008,0.00003202459],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002128938,0.00004629423,0.09995894,0.00001281249,0.0001081582,3.560805e-7,0.00001425347,0.00166279,0.8970473,0.0002345381,0.0001016081,0.0006000841],"study_design_scores_gemma":[0.0003568284,0.0005114702,0.4857842,0.00001719235,0.00005777156,0.00005978677,0.00008927095,0.0002493837,0.5117413,0.0004394925,0.0006342877,0.0000589824],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9587598,0.01453929,0.02638808,0.0000677798,0.0001351736,0.00007417226,0.000006336782,5.109954e-7,0.00002885609],"genre_scores_gemma":[0.9976978,0.001798492,0.0003919164,0.000005671461,0.00007351391,0.000001792876,0.00000320143,0.000005992494,0.00002157203],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3858252,"threshold_uncertainty_score":0.2655346,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W326971003","doi":"10.1007/s002399910029","title":"The Contributions of Replication Orientation, Gene Direction, and Signal Sequences to Base-Composition Asymmetries in Bacterial Genomes","year":2000,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":185,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Canada Research Chairs; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Codon usage bias; Genetics; Genome; Gene; Replication (statistics); DNA replication; GC-content; Bacterial genome size; Computational biology","retraction":null,"screen_n_in":null,"score":{"opus":0.004521885783165893,"gpt":0.2341524329552977,"spread":0.2296305471721318,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003890549,0.00007027098,0.0001095407,0.00006902833,0.0001094331,0.00001854154,0.00007480542,0.00004923438,0.000005100422],"category_scores_gemma":[0.00008185286,0.00005765166,0.00004980556,0.0001520772,0.00006620936,0.000003679138,0.00001765337,0.00004290666,4.817636e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000438768,"about_ca_system_score_gemma":0.00006973968,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002621966,"about_ca_topic_score_gemma":0.00001460856,"domain_scores_codex":[0.9992148,0.00009538429,0.0003438499,0.0001329865,0.0001148976,0.00009805403],"domain_scores_gemma":[0.9993291,0.00002087606,0.0001753194,0.0001290177,0.0003056672,0.0000400348],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001941363,0.00002518047,0.003015168,0.000002616212,0.00003981173,7.301864e-7,0.00005561595,0.001037874,0.9904786,0.000177043,0.00007160704,0.004901642],"study_design_scores_gemma":[0.0005030771,0.0004423811,0.1066174,0.00001410134,0.00003276408,0.00005025723,0.00007885244,0.00005095474,0.8872002,0.0007584705,0.00416947,0.00008207309],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9897819,0.003869408,0.005588673,0.0004805671,0.00009054065,0.0001319977,0.00002081217,7.922173e-7,0.00003526572],"genre_scores_gemma":[0.9975234,0.001179058,0.001111374,0.00003169805,0.0001092633,0.000007718574,0.0000160468,0.000004953633,0.00001650877],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1036022,"threshold_uncertainty_score":0.2350967,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W54989269","doi":"10.1007/s002390010064","title":"Phylogeny of Ultra-Rapidly Evolving Dinoflagellate Chloroplast Genes: A Possible Common Origin for Sporozoan and Dinoflagellate Plastids","year":2000,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Protist diversity and phylogeny","field":"Biochemistry, Genetics and Molecular Biology","cited_by":183,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of British Columbia","funders":"","keywords":"Dinoflagellate; Peridinin; Biology; Plastid; Endosymbiosis; Phylogenetic tree; Chloroplast; Evolutionary biology; Phylogenetics; 23S ribosomal RNA; Botany; Ribosomal RNA; Algae; Genetics; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.007274918441191883,"gpt":0.2273473408114597,"spread":0.2200724223702678,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003465955,0.0002024066,0.0003206087,0.0001178705,0.000123683,0.00002726887,0.0002312498,0.0001911887,0.00003335574],"category_scores_gemma":[0.00004776411,0.0001992773,0.0002376374,0.0001240623,0.0001227956,0.00002087561,0.0000379682,0.0001329339,0.000002597295],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004260856,"about_ca_system_score_gemma":0.0001044028,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002256585,"about_ca_topic_score_gemma":0.00000893678,"domain_scores_codex":[0.9987277,0.00008247309,0.0004533985,0.0002395451,0.00022318,0.0002736555],"domain_scores_gemma":[0.9990447,0.00002537717,0.0003595239,0.000209024,0.0002253058,0.0001361052],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0007987016,0.00009033592,0.01721258,0.00008748032,0.0001710174,0.00002410032,0.00006151538,0.00103839,0.976206,0.00006573571,0.0002526217,0.003991511],"study_design_scores_gemma":[0.002842295,0.002031607,0.06367919,0.000146079,0.0002373593,0.0003736971,0.00009237677,0.000471413,0.9256633,0.0008547028,0.003202444,0.0004055487],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9861174,0.005096829,0.00790605,0.00002856965,0.0001472575,0.0002361555,0.00005985032,0.000005135273,0.0004027089],"genre_scores_gemma":[0.9970223,0.000990723,0.001587428,0.00004100597,0.0001693181,0.000002687847,0.00002891032,0.00002253299,0.000135091],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05054272,"threshold_uncertainty_score":0.8126292,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2170529816","doi":"10.1007/s002390010093","title":"Gene Conversion Drives Within Genic Sequences: Concerted Evolution of Ribosomal RNA Genes in Bacteria and Archaea","year":2000,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":170,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Sherbrooke","funders":"","keywords":"Biology; Concerted evolution; Genetics; Gene conversion; Gene; Ribosomal RNA; Genome; Operon","retraction":null,"screen_n_in":null,"score":{"opus":0.006714980435985944,"gpt":0.2163914039512826,"spread":0.2096764235152966,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004415401,0.0001420966,0.0002364391,0.0001254897,0.00004026352,0.00001040095,0.0001504032,0.0001790071,0.00004256165],"category_scores_gemma":[0.00005576998,0.0001316589,0.0001106952,0.0001148894,0.0001293159,0.00002017317,0.00003297519,0.00009720102,0.000001750531],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007329878,"about_ca_system_score_gemma":0.0001673482,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006721521,"about_ca_topic_score_gemma":0.00001296113,"domain_scores_codex":[0.9986451,0.0002431709,0.000524978,0.0001940964,0.0002228901,0.000169758],"domain_scores_gemma":[0.999239,0.000009999799,0.0003785205,0.0001563789,0.000136154,0.00007993067],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0003565509,0.00003995735,0.001683521,0.0000208926,0.00005239,0.00001927532,0.00008208836,0.0004887216,0.9944787,0.00009368658,0.000007533804,0.002676695],"study_design_scores_gemma":[0.0009278562,0.0006250418,0.008960903,0.00009324338,0.00004063977,0.0001944526,0.00009190185,0.0003274445,0.9873559,0.001103876,0.000134399,0.0001443603],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9821118,0.007025642,0.01049255,0.00006029385,0.0001197628,0.0001390352,0.000008993986,0.000002955464,0.00003893509],"genre_scores_gemma":[0.9938208,0.0008652349,0.005146583,0.00002320223,0.00008327319,0.000002906617,0.00001113508,0.00001355305,0.00003330589],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01170897,"threshold_uncertainty_score":0.5368894,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1942529712","doi":"10.1007/s00239-015-9708-6","title":"Analysis of In Vitro Aptamer Selection Parameters","year":2015,"lang":"en","type":"review","venue":"Journal of Molecular Evolution","topic":"Advanced biosensing and bioanalysis techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":168,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Health Canada; Carleton University","funders":"Natural Sciences and Engineering Research Council of Canada; Health Canada","keywords":"Aptamer; Systematic evolution of ligands by exponential enrichment; Selection (genetic algorithm); Biology; Computational biology; Nucleic acid; SELEX Aptamer Technique; Computer science; Genetics; RNA; Artificial intelligence; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.01981364546204294,"gpt":0.3282314105224293,"spread":0.3084177650603863,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007673774,0.0002506342,0.00146337,0.00124246,0.00001431772,0.000009652013,0.0001965124,0.000413971,5.140222e-7],"category_scores_gemma":[0.000175564,0.0002043321,0.001310508,0.001445464,0.0000664372,0.000006042844,0.00004501377,0.0002748621,3.688232e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002161849,"about_ca_system_score_gemma":0.0003003954,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000160349,"about_ca_topic_score_gemma":0.00001127505,"domain_scores_codex":[0.9979213,0.00033633,0.0009913194,0.000250909,0.0003282136,0.0001719082],"domain_scores_gemma":[0.9977173,0.00001303279,0.00150863,0.0002500552,0.0004395209,0.00007145232],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0002707186,0.0003130114,0.0001025116,0.0008877454,0.007672003,0.00004304727,0.00001258616,0.0009413193,0.2539717,0.00001208262,0.0002957143,0.7354776],"study_design_scores_gemma":[0.00133685,0.002172078,0.0001327318,0.004697849,0.06006368,0.0006324122,0.00009864372,0.001061299,0.2505078,0.0002637567,0.6771617,0.001871168],"study_design_candidate":"design_other","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.006902171,0.9769309,0.01589782,0.000006077427,0.00006535309,0.0001436873,0.00002037083,0.000004752766,0.00002892673],"genre_scores_gemma":[0.07047965,0.9216356,0.007586291,0.00001268855,0.00006512116,0.000003491635,0.0001663798,0.00002756191,0.00002320896],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.7336065,"threshold_uncertainty_score":0.8332419,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2064573072","doi":"10.1007/s002390010136","title":"Identification of Four Families of Peptidoglycan Lytic Transglycosylases","year":2001,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":148,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"","keywords":"Lytic cycle; Biology; Bacteriophage; Peptidoglycan; Lysin; Escherichia coli; Genetics; Biochemistry; Cell wall; Gene; Virus","retraction":null,"screen_n_in":null,"score":{"opus":0.007087670832990812,"gpt":0.2238346546965979,"spread":0.2167469838636071,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001775967,0.00006269633,0.0001360391,0.00008460063,0.0000269961,0.000006553818,0.0001204123,0.00003729739,0.0002269432],"category_scores_gemma":[0.0000443005,0.00005810464,0.0001471672,0.0001786205,0.00008495154,0.0002291734,0.00001633455,0.0000777652,0.00001311768],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001190488,"about_ca_system_score_gemma":0.0000172344,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001506867,"about_ca_topic_score_gemma":0.00005019506,"domain_scores_codex":[0.9991252,0.00004335084,0.0004799569,0.0000704555,0.0001945441,0.00008646001],"domain_scores_gemma":[0.9992914,0.00001428175,0.0004923922,0.0001076371,0.00005695147,0.00003732626],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00005071177,0.00009451812,0.001364384,0.000009349234,0.00001864855,0.000008255624,0.0001123425,0.001725475,0.9946336,0.00003227756,0.0001271145,0.001823389],"study_design_scores_gemma":[0.00050691,0.000316043,0.3191489,0.00008839784,0.0001224801,0.0004029066,0.0003190783,0.0004849126,0.6768485,0.0004002418,0.00125186,0.0001098682],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9677712,0.00009850627,0.03145823,0.0001136421,0.0001279454,0.00005623302,0.000005181796,0.00000265173,0.0003664291],"genre_scores_gemma":[0.9992433,0.0001149177,0.0004747164,0.00001270356,0.00001973987,6.27581e-7,0.000001060267,0.000006061072,0.0001268536],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3177851,"threshold_uncertainty_score":0.2484868,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2165389205","doi":"10.1007/s002390010120","title":"An Updated and Comprehensive rRNA Phylogeny of (Crown) Eukaryotes Based on Rate-Calibrated Evolutionary Distances","year":2000,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":147,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"Medical Research Council; Vlaamse regering; Universiteit Antwerpen; Medical Research Council Canada; Universität Konstanz; Bijzonder Onderzoeksfonds UGent; National Science Foundation","keywords":"Biology; Phylogenetic tree; Phylogenetics; Ribosomal RNA; Evolutionary biology; 18S ribosomal RNA; Genetics; Eukaryote; Computational biology; Genome; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.006253266792418354,"gpt":0.2233487611263322,"spread":0.2170954943339138,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001443838,0.000169249,0.0002421542,0.00008282413,0.0000771384,0.00001330655,0.0001479923,0.0001096866,0.00003236046],"category_scores_gemma":[0.00001929544,0.0001507741,0.0001127504,0.0001211492,0.0001562793,0.000004681349,0.0000195014,0.00009442266,0.000001208653],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002202779,"about_ca_system_score_gemma":0.00009005944,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001486937,"about_ca_topic_score_gemma":0.000003233798,"domain_scores_codex":[0.9988814,0.0001964276,0.0003754742,0.0002102254,0.00017301,0.0001634917],"domain_scores_gemma":[0.9991378,0.00001523908,0.0002531974,0.0002113596,0.0002887216,0.00009364197],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0008265484,0.0001499015,0.004669563,0.00001129888,0.0001127798,0.00001053394,0.00001785943,0.01369276,0.978996,0.0000630911,0.0004120581,0.001037543],"study_design_scores_gemma":[0.002284803,0.003475509,0.6376746,0.00006425959,0.0001382011,0.00007190974,0.0001317311,0.006283035,0.3436539,0.0007636049,0.005071771,0.00038663],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9929261,0.004724119,0.001886453,0.00008024142,0.00008064256,0.0001042774,0.00004062034,0.000002337067,0.0001552675],"genre_scores_gemma":[0.9976642,0.0003219218,0.001669597,0.0001677046,0.00008667405,0.000001865757,0.00005109817,0.00001715362,0.00001984531],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6353422,"threshold_uncertainty_score":0.6148387,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2043669850","doi":"10.1007/s00239-009-9222-9","title":"Correlation Between Ka/Ks and Ks is Related to Substitution Model and Evolutionary Lineage","year":2009,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":125,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta","funders":"National Eye Institute","keywords":"Correlation; Lineage (genetic); Substitution (logic); Biology; Selection (genetic algorithm); Evolutionary biology; Negative correlation; Positive correlation; Algorithm; Genetics; Mathematics; Computer science; Gene; Artificial intelligence","retraction":null,"screen_n_in":null,"score":{"opus":0.007814143798010242,"gpt":0.2334601283129537,"spread":0.2256459845149435,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002171056,0.0001268544,0.0001625255,0.00009975654,0.0001007408,0.00001521563,0.00005625678,0.000156858,9.788783e-7],"category_scores_gemma":[0.00006499302,0.000124859,0.00006868687,0.00008559939,0.00004648186,0.000005038158,0.00004421917,0.0001159885,0.000001240235],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004015255,"about_ca_system_score_gemma":0.00006001487,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003249658,"about_ca_topic_score_gemma":8.996485e-7,"domain_scores_codex":[0.9991519,0.00004086229,0.0003278089,0.0001883376,0.0001502475,0.0001408513],"domain_scores_gemma":[0.9993972,0.000006594763,0.0001772848,0.0001175235,0.0001908345,0.00011061],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001215913,0.00004137149,0.01622706,0.000008267387,0.0001058351,0.000007259254,0.0001607026,0.02280006,0.9564614,0.001093712,0.0006655686,0.002307189],"study_design_scores_gemma":[0.002110851,0.002153614,0.9190144,0.00009696848,0.0003129709,0.0003795393,0.00008643176,0.01883432,0.04046938,0.01314197,0.002850797,0.0005487439],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9419423,0.00705901,0.05010282,0.0005681734,0.0000739093,0.0001169294,0.00001099455,0.000002175994,0.0001236265],"genre_scores_gemma":[0.995696,0.0004335099,0.003492222,0.0002047085,0.00009252831,0.000001095395,0.00001281356,0.000008669109,0.00005845977],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.915992,"threshold_uncertainty_score":0.5091603,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2171069213","doi":"10.1007/s00239-006-0284-7","title":"The Mechanisms of Codon Reassignments in Mitochondrial Genetic Codes","year":2007,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":125,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs","keywords":"Biology; Transfer RNA; Codon usage bias; Genetic code; Genome; Genetics; Start codon; Mitochondrial DNA; Mechanism (biology); Stop codon; Gene; RNA; Base sequence; Physics","retraction":null,"screen_n_in":null,"score":{"opus":0.00546738957571583,"gpt":0.231767359966686,"spread":0.2262999703909702,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0009521437,0.0001041154,0.0001570499,0.00008555638,0.0000493215,0.00001121824,0.0002381453,0.0001408611,0.00000374125],"category_scores_gemma":[0.0002231946,0.00007885396,0.0001392559,0.0000996493,0.00004943777,0.000004662749,0.00003957176,0.0000944092,0.000001197609],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004910424,"about_ca_system_score_gemma":0.0000860307,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000013158,"about_ca_topic_score_gemma":0.00002748696,"domain_scores_codex":[0.9986509,0.0001585918,0.0005291624,0.0001201131,0.0003378864,0.0002033097],"domain_scores_gemma":[0.9991222,0.00002890369,0.0004330127,0.0002053137,0.0001497081,0.00006083579],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004278733,0.00005016553,0.0002399135,0.000005724803,0.00004032237,0.00002121216,0.00001163791,0.0001357759,0.9946558,0.001381633,0.00006445796,0.002965448],"study_design_scores_gemma":[0.000644892,0.0005379896,0.004217768,0.00004364141,0.00002455335,0.00007239782,0.00008160085,0.00001744332,0.9854039,0.008174244,0.000696754,0.00008483105],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.5611919,0.001567624,0.4366463,0.00005327872,0.0003034445,0.0001165884,0.000001492071,0.000001082254,0.0001182868],"genre_scores_gemma":[0.9896778,0.0001448086,0.009954235,0.00002912446,0.0001314082,0.000002510786,0.0000018213,0.00001363795,0.00004467761],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4284859,"threshold_uncertainty_score":0.3215571,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2077283682","doi":"10.1007/s00239-005-0246-5","title":"The Relationship Between the Rate of Molecular Evolution and the Rate of Genome Rearrangement in Animal Mitochondrial Genomes","year":2006,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":118,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Toronto; Ontario Institute for Cancer Research; McMaster University","funders":"Biotechnology and Biological Sciences Research Council; Natural Sciences and Engineering Research Council of Canada; Innovative Research Group Project of the National Natural Science Foundation of China","keywords":"Biology; Genome; Mitochondrial DNA; Molecular evolution; Molecular clock; Rate of evolution; Gene; Genetics; Evolutionary biology; Mutation rate; Genome evolution; Phylogenetics; Gene rearrangement; Phylum; Phylogenetic tree","retraction":null,"screen_n_in":null,"score":{"opus":0.00940531470823486,"gpt":0.2255797796705259,"spread":0.216174464962291,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001413713,0.0001410856,0.0002423751,0.0000714812,0.0001539103,0.00001942094,0.0002478748,0.00009472729,6.79693e-7],"category_scores_gemma":[0.0002576037,0.00008264925,0.0001837858,0.000161486,0.0003498265,0.000003486971,0.0001045737,0.0001579309,3.400937e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005028133,"about_ca_system_score_gemma":0.00009791937,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001170412,"about_ca_topic_score_gemma":0.00004552035,"domain_scores_codex":[0.9982687,0.0005584748,0.0006601514,0.0001518696,0.0001741046,0.000186657],"domain_scores_gemma":[0.9986859,0.0001598173,0.0006234961,0.0002677758,0.000235485,0.00002752691],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.000508193,0.00002545524,0.03283492,0.00001341499,0.0001352035,0.000002237937,0.00007110996,0.002387285,0.9586057,0.005270533,0.00006220307,0.00008371971],"study_design_scores_gemma":[0.002359524,0.0004021059,0.9346326,0.00002695048,0.0001892661,0.00001695211,0.0002011506,0.00008609914,0.04515394,0.01590333,0.0008984081,0.0001296994],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9647781,0.02851984,0.005130135,0.001053285,0.0001077563,0.0003100329,0.0000121523,6.830123e-7,0.00008801724],"genre_scores_gemma":[0.9990098,0.0004424053,0.0002684826,0.00002565223,0.0002016731,0.000009055077,0.000006769686,0.00001324323,0.00002288829],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9134518,"threshold_uncertainty_score":0.3370338,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2162880055","doi":"10.1007/s00239-005-0162-8","title":"Twinkle, the Mitochondrial Replicative DNA Helicase, Is Widespread in the Eukaryotic Radiation and May Also Be the Mitochondrial DNA Primase in Most Eukaryotes","year":2006,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Mitochondrial Function and Pathology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":115,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University; Canadian Institute for Advanced Research","funders":"","keywords":"Primase; Biology; Helicase; Mitochondrial DNA; DNA; Genetics; Cell biology; Gene; RNA","retraction":null,"screen_n_in":null,"score":{"opus":0.008114459783743007,"gpt":0.2438935082480703,"spread":0.2357790484643273,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007699776,0.0002340735,0.0002523641,0.0001458552,0.0001659301,0.00007269366,0.0003991007,0.0002472016,0.00001626471],"category_scores_gemma":[0.0006898363,0.0001388866,0.0001772154,0.0003965688,0.0002222262,0.00002621661,0.00007799581,0.0004400618,0.000003703698],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007971719,"about_ca_system_score_gemma":0.0001564369,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002047404,"about_ca_topic_score_gemma":0.0003352623,"domain_scores_codex":[0.9972955,0.0009774136,0.0006983174,0.0003568181,0.0003776605,0.0002942714],"domain_scores_gemma":[0.9985727,0.0001824309,0.0004929355,0.0005303604,0.0001674133,0.00005413856],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0007636691,0.0001624903,0.002717781,0.000009276951,0.00004462821,0.00005355588,0.0004178012,0.0004428503,0.9799885,0.0006288228,0.01338106,0.001389587],"study_design_scores_gemma":[0.01260805,0.003293953,0.153553,0.0001968993,0.0004665118,0.003179373,0.001634652,0.0007666114,0.6796553,0.01105802,0.1325007,0.001086991],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9742743,0.003836542,0.008329992,0.01142498,0.001011383,0.000793624,0.00002376582,0.000005477581,0.0002998721],"genre_scores_gemma":[0.9944392,0.0003238522,0.000942704,0.002412246,0.001590641,0.00005085194,0.00006244571,0.00002724989,0.0001508198],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3003332,"threshold_uncertainty_score":0.5663632,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1991728702","doi":"10.1007/s00239-002-2434-x","title":"The Evolution of Enzyme Specificity in Fasciola spp.","year":2003,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Helminth infection and control","field":"Veterinary","cited_by":104,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University","funders":"","keywords":"Biology; Fasciola; Fasciola hepatica; Cathepsin L; Gene duplication; Fasciola gigantica; Genetics; Enzyme; Cathepsin; Gene; Biochemistry; Evolutionary biology; Zoology; Helminths","retraction":null,"screen_n_in":null,"score":{"opus":0.01764946960749944,"gpt":0.2734568923140971,"spread":0.2558074227065976,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001345384,0.0000998973,0.0001981668,0.0001894024,0.00007719859,0.00001746698,0.0001347179,0.00009436229,0.0000680669],"category_scores_gemma":[0.0005555465,0.0000758763,0.0001955649,0.000282557,0.00006184108,0.0001415596,0.00001372872,0.0002963864,0.00002790782],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006029567,"about_ca_system_score_gemma":0.0001798062,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007558402,"about_ca_topic_score_gemma":0.00003448047,"domain_scores_codex":[0.998219,0.0005032184,0.0006399922,0.00009817097,0.0003465665,0.0001930113],"domain_scores_gemma":[0.9989706,0.00007533791,0.0004459682,0.0001878303,0.000259496,0.00006081288],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0009701073,0.0004467069,0.01688888,0.00002602621,0.0001206765,0.0002208119,0.0001986777,0.001859322,0.8746851,0.100509,0.001322813,0.002751922],"study_design_scores_gemma":[0.01241353,0.006020172,0.6901705,0.0006299227,0.0002945905,0.005613403,0.004704738,0.008739918,0.09506534,0.06088198,0.1143361,0.001129783],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9018643,0.002495363,0.08949349,0.0002046918,0.0005954028,0.0001361247,0.000001625836,0.000008060975,0.005200893],"genre_scores_gemma":[0.9995931,0.00003716518,0.0001874742,0.00002367519,0.00007140203,0.000002525921,2.448158e-7,0.000009753951,0.00007465416],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7796198,"threshold_uncertainty_score":0.3094146,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2035287841","doi":"10.1007/s00239-002-2330-4","title":"Identification and Phylogenetic Analysis of a Glucose Transporter Gene Family from the Human Pathogenic Yeast Candida albicans","year":2002,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Metabolism, Diabetes, and Cancer","field":"Biochemistry, Genetics and Molecular Biology","cited_by":102,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Biotechnology Research Institute","funders":"","keywords":"Biology; Major facilitator superfamily; Genetics; Gene; Phylogenetic tree; Glucose transporter; Candida albicans; Saccharomyces cerevisiae; Yeast; Transporter; Conserved sequence; Gene family; Homology (biology); Peptide sequence; Gene expression","retraction":null,"screen_n_in":null,"score":{"opus":0.00818654288634832,"gpt":0.2179769965355569,"spread":0.2097904536492085,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002294485,0.0001110105,0.0002310492,0.00009980725,0.00005552484,0.00001587624,0.0001673004,0.0000900762,0.00003742465],"category_scores_gemma":[0.00001918523,0.00008806287,0.0002557268,0.0002253642,0.00008169069,0.000006201644,0.00001532486,0.00007985382,7.46093e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002127895,"about_ca_system_score_gemma":0.00002887087,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007271004,"about_ca_topic_score_gemma":0.00007895262,"domain_scores_codex":[0.998911,0.0001192139,0.0004303153,0.0001750716,0.0002373871,0.0001269852],"domain_scores_gemma":[0.9991126,0.000005621421,0.0003786499,0.0002736629,0.0001656127,0.0000638597],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00001788575,0.00005118834,0.003856326,0.000004469661,0.0006638668,0.000003056395,0.000108638,0.0003051699,0.9883398,0.00001487899,0.0001062158,0.006528438],"study_design_scores_gemma":[0.0009875322,0.0001790691,0.498649,0.00002521769,0.002931744,0.00001028949,0.0001386279,0.000627571,0.492618,0.0001864948,0.00344547,0.0002010249],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8013594,0.191315,0.007094744,0.0000206129,0.0000569567,0.00006305656,0.00007647763,0.000001162605,0.0000126286],"genre_scores_gemma":[0.9891589,0.01038998,0.0001144874,0.0001182821,0.0001346354,0.000004107199,0.00005180079,0.00001168835,0.00001614057],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4957219,"threshold_uncertainty_score":0.35911,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1993177418","doi":"10.1007/s00239-005-0129-9","title":"Adaptive Evolution of Multicolored Fluorescent Proteins in Reef-Building Corals","year":2006,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Coral and Marine Ecosystems Studies","field":"Environmental Science","cited_by":100,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"","keywords":"Biology; Evolutionary biology; Photosynthesis; Green fluorescent protein; Botany; Gene; Genetics","retraction":null,"screen_n_in":null,"score":{"opus":0.00584042871034059,"gpt":0.2043336199488063,"spread":0.1984931912384657,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003983191,0.0001047458,0.0002335826,0.0001200584,0.00004324763,0.000005821348,0.0001197599,0.00005342607,0.00002138247],"category_scores_gemma":[0.00008473619,0.00009057437,0.0001076714,0.0002836987,0.00006950682,0.0001856141,0.0001178624,0.0001309217,0.000007255082],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001056031,"about_ca_system_score_gemma":0.00002810225,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002217521,"about_ca_topic_score_gemma":0.0005870996,"domain_scores_codex":[0.9986615,0.0001026154,0.0005389308,0.0001274425,0.0003866912,0.0001828543],"domain_scores_gemma":[0.999296,0.00001587321,0.0004960131,0.00009483678,0.00005950679,0.00003777022],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0002040383,0.0003182209,0.1551894,0.00002207777,0.00002116909,0.0000521555,0.00006200042,0.009634087,0.8308913,0.001865255,0.0004662666,0.001274053],"study_design_scores_gemma":[0.0009767374,0.0004412534,0.9617456,0.0001684264,0.00003268587,0.00003966349,0.0001307977,0.006033465,0.02407356,0.006061576,0.000156089,0.0001401736],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9698324,0.000491146,0.02865283,0.0001219296,0.000125679,0.0002775991,0.000001869688,0.000005816296,0.0004906984],"genre_scores_gemma":[0.9952787,0.000006455532,0.004617873,0.00000450537,0.00004448829,0.000006583963,5.386813e-7,0.000007036246,0.00003378679],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8068177,"threshold_uncertainty_score":0.3693516,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2006473277","doi":"10.1007/s00239-002-2396-z","title":"Molecular Evolution of Vertebrate Goose-Type Lysozyme Genes","year":2003,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Animal Genetics and Reproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":100,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Toronto","funders":"","keywords":"Lysozyme; Biology; Gene; Signal peptide; Exon; Genetics; Molecular evolution; Vertebrate; Genome; Function (biology); Conserved sequence; In silico; Peptide sequence","retraction":null,"screen_n_in":null,"score":{"opus":0.006069309160203025,"gpt":0.2249993165242164,"spread":0.2189300073640134,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005237033,0.000187277,0.0002500453,0.0001570214,0.00005975677,0.00001349109,0.0001796648,0.0002138066,0.00001268924],"category_scores_gemma":[0.0002469384,0.000176189,0.0002596415,0.0002837816,0.00009730375,0.00001206157,0.00004170014,0.0001162323,0.000006113327],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009510363,"about_ca_system_score_gemma":0.000321408,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00000937781,"about_ca_topic_score_gemma":0.000002490049,"domain_scores_codex":[0.9983652,0.0002036968,0.0005530939,0.0002783529,0.0003637076,0.0002359871],"domain_scores_gemma":[0.9982378,0.000003851638,0.0005337988,0.0003486197,0.0007696436,0.0001062304],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001475599,0.0001190355,0.001911215,0.00002340421,0.0001330398,0.0000150258,0.00001113179,0.00547433,0.9885792,0.002868999,0.0002743691,0.000442669],"study_design_scores_gemma":[0.0006573891,0.001220894,0.003034328,0.00003265533,0.0001232656,0.0003008494,0.00008017173,0.000158391,0.985429,0.001485456,0.007265971,0.0002116198],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9007738,0.02122516,0.07677016,0.00006400349,0.0005674424,0.0001195237,0.000002556397,0.000004667937,0.0004727118],"genre_scores_gemma":[0.9968069,0.0004823898,0.002344937,0.00003218941,0.0001673219,0.000001628093,0.000009177945,0.00003095294,0.0001245283],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0960331,"threshold_uncertainty_score":0.7184779,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2142215487","doi":"10.1007/s00239-008-9179-0","title":"Recoding of Translation in Turtle Mitochondrial Genomes: Programmed Frameshift Mutations and Evidence of a Modified Genetic Code","year":2008,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":92,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Simon Fraser University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Frameshift mutation; Biology; Mitochondrial DNA; Genetics; Genome; Turtle (robot); Stop codon; Genetic code; Translation (biology); Gene; Evolutionary biology; Mutation; Messenger RNA; Ecology","retraction":null,"screen_n_in":null,"score":{"opus":0.03249903625293381,"gpt":0.2693985333730567,"spread":0.2368994971201229,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001824087,0.00008759159,0.0002001736,0.0001151801,0.00003005678,0.000003548118,0.00008443338,0.00009049555,8.25585e-7],"category_scores_gemma":[0.0001392402,0.00008601749,0.00009550968,0.0001132018,0.0001041985,0.000003346097,0.00002082028,0.00007332223,8.145494e-8],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001896323,"about_ca_system_score_gemma":0.0001204153,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002206436,"about_ca_topic_score_gemma":0.00002830516,"domain_scores_codex":[0.9990491,0.00009508621,0.0004741191,0.0001242998,0.0001488164,0.0001085563],"domain_scores_gemma":[0.9992882,0.00002926994,0.0003468475,0.0001078417,0.0001893288,0.0000384854],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001557584,0.00005615963,0.00696343,0.00004573769,0.00005585766,0.000005582516,0.0005386667,0.004351972,0.9853774,0.00001799672,0.000005547214,0.002425944],"study_design_scores_gemma":[0.004926999,0.003196414,0.3313448,0.0005546992,0.0002700944,0.0004216823,0.0007005795,0.003509432,0.6518448,0.002477131,0.0002771891,0.0004761642],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.945198,0.02652192,0.02795174,0.00006088605,0.00008009027,0.0001661718,0.000004522788,5.685326e-7,0.00001611613],"genre_scores_gemma":[0.9815766,0.001775982,0.01657066,0.000006953048,0.0000512347,0.000004824254,0.000002267222,0.000008468523,0.000003062457],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3335326,"threshold_uncertainty_score":0.3507691,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1989810402","doi":"10.1007/s00239-005-0018-2","title":"Evidence for a Diverse Cys-Loop Ligand-Gated Ion Channel Superfamily in Early Bilateria","year":2006,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Nicotinic Acetylcholine Receptors Study","field":"Biochemistry, Genetics and Molecular Biology","cited_by":92,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University","funders":"","keywords":"Biology; Bilateria; Chordate; Caenorhabditis elegans; Ciona intestinalis; Vertebrate; Drosophila melanogaster; Starfish; Genetics; Ligand-gated ion channel; Evolutionary biology; Cys-loop receptors; Caenorhabditis; Clade; Gene; Cell biology; Acetylcholine receptor; Nicotinic acetylcholine receptor; Ion channel; Phylogenetics; Receptor; Ecology","retraction":null,"screen_n_in":null,"score":{"opus":0.02028507588412328,"gpt":0.2727998064770527,"spread":0.2525147305929294,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005589594,0.0001681876,0.0002306791,0.0001518151,0.00005152749,0.0000229673,0.0002108716,0.0001876512,0.000002498011],"category_scores_gemma":[0.0002590339,0.0001571815,0.0001993276,0.000183683,0.00005281506,0.0000228573,0.00007319677,0.0001419911,0.000004305467],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001150873,"about_ca_system_score_gemma":0.0001313599,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001313831,"about_ca_topic_score_gemma":0.00003626169,"domain_scores_codex":[0.9986262,0.0001097536,0.0005165057,0.0002389236,0.0002341819,0.000274439],"domain_scores_gemma":[0.9990997,0.0000190158,0.0003051374,0.0001882169,0.0003240261,0.00006392924],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004990472,0.000148896,0.006000572,0.00001786747,0.00003599013,0.000007024682,0.00003565311,0.00102653,0.991131,0.00001841972,0.0009595392,0.0001194492],"study_design_scores_gemma":[0.003501656,0.001660502,0.02668794,0.0002904492,0.00009159154,0.0001247602,0.0001168608,0.0004386769,0.9657542,0.0002539367,0.0007622334,0.0003172533],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9800606,0.002947492,0.01608548,0.0001154293,0.0004468529,0.0003035858,0.000007118762,0.000005847776,0.00002762284],"genre_scores_gemma":[0.9983576,0.0001828724,0.0008318837,0.00004288184,0.000431838,0.000008303981,0.00001823506,0.00002531237,0.0001010996],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02537687,"threshold_uncertainty_score":0.6409675,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1980413383","doi":"10.1007/s00239-007-9035-7","title":"Evolution of Receptors for Growth Hormone and Somatolactin in Fish and Land Vertebrates: Lessons from the Lungfish and Sturgeon Orthologues","year":2007,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Growth Hormone and Insulin-like Growth Factors","field":"Medicine","cited_by":91,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Institute of Genetics; Universität Konstanz; Deutsche Forschungsgemeinschaft","keywords":"Biology; Lungfish; Synteny; Vertebrate; Growth hormone receptor; Gene duplication; Evolutionary biology; Phylogenetic tree; Amphibian; Gene; Phylogenetics; Genetics; Zoology; Genome; Hagfish; Ecology; Fish <Actinopterygii>; Hormone; Fishery; Growth hormone; Endocrinology","retraction":null,"screen_n_in":null,"score":{"opus":0.01019187673382299,"gpt":0.2536216417138611,"spread":0.2434297649800381,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008312149,0.0001429907,0.0003679263,0.0002176904,0.00006868281,0.00001638386,0.00005387951,0.0001609762,0.000001251208],"category_scores_gemma":[0.0004975497,0.0001040378,0.00007380285,0.0001931093,0.0001302593,0.0002002858,0.00003207473,0.0002594524,1.441678e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001039475,"about_ca_system_score_gemma":0.00007627191,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000281715,"about_ca_topic_score_gemma":0.000185122,"domain_scores_codex":[0.9987897,0.00007626397,0.0005310237,0.0001657196,0.0002374912,0.0001997786],"domain_scores_gemma":[0.9989974,0.0002091611,0.0003502079,0.0001001572,0.0002265301,0.0001165084],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001267923,0.0001309969,0.8908954,0.00007341844,0.0001208974,0.00003502917,0.0006447445,0.000001728049,0.1037673,0.0003923191,0.001352026,0.001318262],"study_design_scores_gemma":[0.002926586,0.0007099877,0.9859091,0.0001712815,0.0002033596,0.0001618913,0.0009250844,0.0001979156,0.00688328,0.001634961,0.0001721407,0.0001044348],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.984609,0.008162051,0.005236046,0.001556526,0.0001175658,0.0002718442,0.00001541114,0.000006831138,0.00002473396],"genre_scores_gemma":[0.9980184,0.001012124,0.0007197612,0.0001351398,0.00007921126,0.000002376374,0.0000127988,0.00001498477,0.000005213474],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09688397,"threshold_uncertainty_score":0.424254,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1021008049","doi":"10.1007/s00239-015-9686-8","title":"Pathways of Genetic Code Evolution in Ancient and Modern Organisms","year":2015,"lang":"en","type":"review","venue":"Journal of Molecular Evolution","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":87,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Genetic code; Biology; Code (set theory); Selection (genetic algorithm); Evolutionary biology; Genome; Genetics; Gene; Amino acid; Biological evolution; Transfer RNA; Molecular evolution; Computational biology; RNA; Programming language; Computer science; Artificial intelligence","retraction":null,"screen_n_in":null,"score":{"opus":0.02358787430291122,"gpt":0.2690600242240733,"spread":0.2454721499211621,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0009018908,0.0002900051,0.0009242802,0.0002854579,0.00002501514,0.0000137988,0.0002687896,0.000482909,0.000003224313],"category_scores_gemma":[0.0001877148,0.000252385,0.0003078489,0.0001928292,0.0000639544,0.000007700636,0.0001095099,0.0002139067,0.000002130927],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002100756,"about_ca_system_score_gemma":0.0007985771,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000007246336,"about_ca_topic_score_gemma":0.000006184364,"domain_scores_codex":[0.9977343,0.0003779122,0.0009625099,0.0002913067,0.0004025549,0.0002314273],"domain_scores_gemma":[0.9981369,0.00001165333,0.001090966,0.0003175321,0.0003095688,0.0001333373],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00009611273,0.0002008864,0.00005449494,0.002732566,0.0002274196,0.00008941929,0.00006436702,0.0002624083,0.6060584,0.0003921739,0.0001506734,0.3896711],"study_design_scores_gemma":[0.006867675,0.009439236,0.00155553,0.03313132,0.004916458,0.007914263,0.0003399226,0.0006453817,0.1067766,0.03083181,0.793439,0.004142819],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.01284724,0.9163274,0.0702526,0.000005837724,0.0001775096,0.0003233279,0.00002633368,0.000002386364,0.00003732176],"genre_scores_gemma":[0.07222519,0.9237501,0.003766472,0.00001102531,0.000142016,0.00001224765,0.00002114715,0.00005373411,0.0000180595],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.7932883,"threshold_uncertainty_score":0.9999928,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2152097655","doi":"10.1007/s002390010232","title":"Does Human mtDNA Recombine?","year":2001,"lang":"en","type":"review","venue":"Journal of Molecular Evolution","topic":"Mitochondrial Function and Pathology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":85,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of British Columbia","funders":"","keywords":"Biology; Recombination; Mitochondrial DNA; Population; Genetics; Genetic recombination; Evolutionary biology; Genome; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.02111327189020001,"gpt":0.3100050221283522,"spread":0.2888917502381522,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004048933,0.0003182552,0.0008800441,0.000251616,0.00007464592,0.00002476089,0.0003262503,0.0006402638,0.0001009432],"category_scores_gemma":[0.0001687286,0.0002004986,0.0009562671,0.0001914294,0.00005613696,0.000004963525,0.0000761125,0.0004342705,0.00003065367],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009373284,"about_ca_system_score_gemma":0.0002597745,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000040665,"about_ca_topic_score_gemma":0.000006733691,"domain_scores_codex":[0.9979378,0.0004228603,0.0008787132,0.0002979552,0.0002282441,0.0002344201],"domain_scores_gemma":[0.9981958,0.00001163013,0.001037925,0.0003940398,0.0002306222,0.0001299587],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.000192771,0.0005270136,0.00005810428,0.003998924,0.001524723,0.0007676955,0.00002212163,0.00002534832,0.122975,0.001276183,0.04094318,0.8276889],"study_design_scores_gemma":[0.0003546223,0.0005098713,0.000003468936,0.0009842957,0.0004713633,0.001112595,0.000005964973,2.782414e-7,0.0004369047,0.0002681465,0.9956002,0.0002522861],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.000166811,0.9829688,0.01323042,0.00003452917,0.00251898,0.0002270341,0.00001080455,0.000006739673,0.0008358766],"genre_scores_gemma":[0.0000888203,0.9953483,0.0007465676,0.0000608615,0.001579481,0.000008937451,0.0001480014,0.00005391911,0.001965078],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.954657,"threshold_uncertainty_score":0.8176094,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2095627816","doi":"10.1007/s00239-004-0230-5","title":"Evidence for Hox Gene Duplication in Rainbow Trout (Oncorhynchus mykiss): A Tetraploid Model Species","year":2005,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities","field":"Biochemistry, Genetics and Molecular Biology","cited_by":85,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Rainbow trout; Hox gene; Biology; Synteny; Gene duplication; Trout; Genetics; Vertebrate; Gene; Genome; Evolutionary biology; Fish <Actinopterygii>; Fishery; Gene expression","retraction":null,"screen_n_in":null,"score":{"opus":0.03307513582234591,"gpt":0.299355733807695,"spread":0.2662805979853491,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003987658,0.0001317142,0.0001893672,0.00009848311,0.0000472766,0.00002460979,0.0002067645,0.0001386584,0.000009848725],"category_scores_gemma":[0.0003030329,0.0001227887,0.0002139123,0.00008446525,0.00006288165,0.00002415751,0.00003234847,0.0001093332,0.000002813324],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000830389,"about_ca_system_score_gemma":0.000151542,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000002902436,"about_ca_topic_score_gemma":0.00001582063,"domain_scores_codex":[0.9987816,0.0000498121,0.0005517045,0.0001938323,0.0002276145,0.0001954859],"domain_scores_gemma":[0.9991217,0.00002967519,0.0002989532,0.0001748046,0.0002885086,0.00008635577],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002916196,0.0001416413,0.0006275817,0.00001973943,0.00002617662,0.000003484021,0.00007179825,0.01023094,0.9827307,0.000381957,0.000424057,0.005050294],"study_design_scores_gemma":[0.002749622,0.001543396,0.01963137,0.000161935,0.00008184853,0.0001485064,0.0003590953,0.0147821,0.9528072,0.002586731,0.004761646,0.0003865949],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8895717,0.003494851,0.1054176,0.001122723,0.00004682717,0.0001691775,0.000006551149,0.000004310378,0.00016618],"genre_scores_gemma":[0.9872566,0.0006292721,0.01077629,0.000325338,0.0003752952,0.00001597373,0.00001254811,0.00001375583,0.00059489],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0976849,"threshold_uncertainty_score":0.5007178,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W68124440","doi":"10.1007/s002390010073","title":"Evolution of Simple Sequence in Proteins","year":2000,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":83,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"","keywords":"Biology; Genetics; Saccharomyces cerevisiae; Repeated sequence; Sequence (biology); Peptide sequence; Conserved sequence; Computational biology; Yeast; Tandem repeat; Function (biology); Protein sequencing; Gene; Genome","retraction":null,"screen_n_in":null,"score":{"opus":0.01066491599085761,"gpt":0.274242255389097,"spread":0.2635773393982394,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003609497,0.00008522534,0.0001368717,0.000125393,0.0000214833,0.000006480044,0.0001830818,0.0001089984,0.00005150356],"category_scores_gemma":[0.00009449642,0.00007972908,0.00010915,0.0002113588,0.00006560857,0.000007523302,0.00003051072,0.0001422592,0.000005939555],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009611064,"about_ca_system_score_gemma":0.0002435133,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006525587,"about_ca_topic_score_gemma":0.00002568199,"domain_scores_codex":[0.9989001,0.0001179492,0.0003591123,0.000127595,0.0003118505,0.0001834342],"domain_scores_gemma":[0.9993991,0.000004278877,0.0001396527,0.0001693967,0.000221026,0.00006657346],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002098939,0.00009376096,0.003915421,0.00001900523,0.00001606492,0.00001558994,0.00001431531,0.00562645,0.9872332,0.0001099577,0.0001107603,0.002635548],"study_design_scores_gemma":[0.001093353,0.001246123,0.02897984,0.00007743593,0.00001568735,0.0001479101,0.00005241001,0.0009461549,0.9623998,0.002149556,0.002729973,0.0001617003],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9908922,0.002119125,0.006164624,0.00007250589,0.00003487798,0.0001255992,0.000006584166,0.000001412842,0.0005830736],"genre_scores_gemma":[0.9985915,0.0001389773,0.001020417,0.00001426406,0.00008340801,0.00000336723,0.000007087408,0.00001008929,0.0001308729],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02506442,"threshold_uncertainty_score":0.3251258,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2077681390","doi":"10.1007/s002390010224","title":"Defining the Core of Nontransferable Prokaryotic Genes: The Euryarchaeal Core","year":2001,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":75,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"","keywords":"Biology; Gene; Phylogenetic tree; Genome; Phylogenetics; Horizontal gene transfer; Evolutionary biology; Core (optical fiber); Genetics; Computational biology; Computer science","retraction":null,"screen_n_in":null,"score":{"opus":0.01215962587632458,"gpt":0.2384790219848854,"spread":0.2263193961085608,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000447692,0.0001105825,0.0001487773,0.0000409403,0.0001294286,0.000008863165,0.0002809528,0.00006488762,0.000003667105],"category_scores_gemma":[0.00007347739,0.00006472442,0.000178337,0.0001272742,0.0001431561,0.000001218585,0.00005973127,0.0001289554,0.000001188761],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001829336,"about_ca_system_score_gemma":0.0001108508,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002671673,"about_ca_topic_score_gemma":0.00002225262,"domain_scores_codex":[0.9991071,0.00006680661,0.0003331518,0.0001081435,0.0002090544,0.000175783],"domain_scores_gemma":[0.9992232,0.00002395174,0.0002237997,0.0002321669,0.0002596067,0.00003730243],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001862082,0.00005435661,0.01953917,0.00001479874,0.0002205381,0.00001568164,0.0001843757,0.005138416,0.9701118,0.00224309,0.0004632723,0.001828236],"study_design_scores_gemma":[0.005871291,0.006293828,0.3538835,0.0002949507,0.001220213,0.004404776,0.003224127,0.003400898,0.5200041,0.01315204,0.08716023,0.001089989],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9639575,0.02681099,0.008197511,0.0004435812,0.0001890655,0.0001387263,0.000005607892,8.127776e-7,0.0002562112],"genre_scores_gemma":[0.9976731,0.001482393,0.0004687974,0.0001549345,0.0001471533,0.000004003535,0.00000408006,0.00001308267,0.00005247618],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4501077,"threshold_uncertainty_score":0.2639385,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2025656644","doi":"10.1007/s00239-005-0046-y","title":"Phylogenetic Analysis Reveals a Novel Protein Family Closely Related to Adenosine Deaminase","year":2005,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"interferon and immune responses","field":"Immunology and Microbiology","cited_by":75,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta","funders":"","keywords":"Biology; AMP deaminase; Intron; Phylogenetic tree; Adenosine deaminase; Phylogenetics; Genetics; Gene; Amino acid; Biochemistry; Adenosine","retraction":null,"screen_n_in":null,"score":{"opus":0.00702522736132441,"gpt":0.242123488908036,"spread":0.2350982615467116,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005159731,0.00016453,0.0003892138,0.0007046669,0.00007826556,0.00001448368,0.00023402,0.0002086275,0.0001161002],"category_scores_gemma":[0.0002321637,0.0001447565,0.0003480173,0.0006262847,0.00005796699,0.00008222687,0.00004791656,0.0003230248,0.0002337898],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002092914,"about_ca_system_score_gemma":0.00009898302,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002175887,"about_ca_topic_score_gemma":0.000004475424,"domain_scores_codex":[0.99846,0.0003075852,0.0006864641,0.0001719192,0.00009315134,0.0002808657],"domain_scores_gemma":[0.9990018,0.00002774179,0.000374549,0.000231722,0.0003161414,0.00004806151],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0006712008,0.0002265482,0.0002025451,0.000004995304,0.0009796073,0.00001922016,0.0001212731,0.000801642,0.9942375,0.0004593993,0.0006648905,0.001611124],"study_design_scores_gemma":[0.002608498,0.001745288,0.1087132,0.0001593817,0.001088001,0.0006077933,0.0001735718,0.00006132949,0.8717412,0.0001398176,0.0126284,0.0003335483],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9595084,0.01076747,0.02848046,0.0007108538,0.0001502921,0.0002110411,0.000008665629,0.00001408618,0.0001486869],"genre_scores_gemma":[0.9961733,0.00002138794,0.001664263,0.0002842281,0.00002435337,0.000006200353,0.000009669359,0.00001569106,0.00180091],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1224964,"threshold_uncertainty_score":0.5902998,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2039026390","doi":"10.1007/s00239-007-9016-x","title":"Complete Mitochondrial DNA Sequence of the Scallop Placopecten magellanicus: Evidence of Transposition Leading to an Uncharacteristically Large Mitochondrial Genome","year":2007,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":73,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Acadia University; Dalhousie University","funders":"Université Laval; Florida State University","keywords":"Biology; Mitochondrial DNA; Transfer RNA; Genome; Gene; Genetics; Scallop; DNA; Evolutionary biology; RNA; Ecology","retraction":null,"screen_n_in":null,"score":{"opus":0.01811001390891753,"gpt":0.2709724579074358,"spread":0.2528624439985183,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005258775,0.0001495066,0.0002797343,0.00008247776,0.00007482889,0.00001143556,0.0003778846,0.0001179156,0.000005139638],"category_scores_gemma":[0.0002301108,0.000122134,0.0002231749,0.000155345,0.00009317155,0.000006002179,0.00007907517,0.0001243914,0.000001093299],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006340546,"about_ca_system_score_gemma":0.0001298762,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001355446,"about_ca_topic_score_gemma":0.00005308657,"domain_scores_codex":[0.9983906,0.0001623112,0.0006556144,0.0002062995,0.0003408309,0.0002443075],"domain_scores_gemma":[0.9986306,0.00003282781,0.0004588419,0.0002834073,0.0004842262,0.0001100651],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0009160766,0.00007455655,0.0006585132,0.00003198386,0.00007946792,0.000007939272,0.0001658772,0.0004416663,0.9973291,0.0001282918,0.00002195064,0.0001445321],"study_design_scores_gemma":[0.001134598,0.002068424,0.07684168,0.0002506447,0.0001871974,0.0001148665,0.0001242654,0.00005301996,0.9177022,0.000240444,0.001037054,0.0002455827],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8853677,0.0007493959,0.1129681,0.0001266103,0.000450957,0.0002151689,0.00009352547,0.000001116181,0.00002749451],"genre_scores_gemma":[0.9930653,0.00005581172,0.006349824,0.00009422464,0.0003921477,0.000001674915,0.00001326431,0.00001570744,0.00001203797],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1076976,"threshold_uncertainty_score":0.4980478,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1970732273","doi":"10.1007/s00239-001-0085-y","title":"Characterization of the Gene Conversions Between the Multigene Family Members of the Yeast Genome","year":2002,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":72,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Ottawa","funders":"","keywords":"Gene; Biology; Pair-rule gene; Gene conversion; Genetics; Gene family; Genome; Gene cluster; Concerted evolution; Complementary DNA; Gene expression; Regulator gene","retraction":null,"screen_n_in":null,"score":{"opus":0.01351730670543872,"gpt":0.2236057382387947,"spread":0.210088431533356,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000266539,0.00008627235,0.0001246213,0.00003843701,0.00009697236,0.00000703701,0.000463613,0.00009130444,0.00001668371],"category_scores_gemma":[0.0000860797,0.00004632425,0.0002372198,0.0001988034,0.0001733392,0.000004627361,0.0001570804,0.0001536612,0.00000169772],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002813578,"about_ca_system_score_gemma":0.00007290939,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001082614,"about_ca_topic_score_gemma":0.000001720355,"domain_scores_codex":[0.9988337,0.0002062154,0.0003255194,0.00009539013,0.0004062833,0.0001328523],"domain_scores_gemma":[0.9989022,0.000008893483,0.0003932811,0.0003293141,0.0003218832,0.00004444661],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00001946553,0.0000376387,0.003496517,0.000009853241,0.00007952888,5.126067e-7,0.00006422091,0.0005139321,0.9954405,0.00001022451,0.00006939662,0.0002582126],"study_design_scores_gemma":[0.0002963055,0.0001055607,0.181255,0.00001916326,0.00005176195,0.00001405577,0.00003858297,0.0002291183,0.8163579,0.00001688144,0.00156696,0.00004868985],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9960963,0.0009980277,0.001968277,0.0004409328,0.0001661956,0.0001615743,0.00004483584,7.79469e-7,0.0001231176],"genre_scores_gemma":[0.9993207,0.00023658,0.00007552279,0.00006217386,0.0001322635,0.000001479384,0.000007998866,0.00001066672,0.0001526029],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1790826,"threshold_uncertainty_score":0.1889048,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1994090085","doi":"10.1007/s00239-003-2494-6","title":"The Evolution of tRNA-Leu Genes in Animal Mitochondrial Genomes","year":2003,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":72,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"","keywords":"Biology; Transfer RNA; Genetics; Gene; Gene duplication; Genome; Tandem exon duplication; Mitochondrial DNA; Phylogenetic tree; Phylogenetics; Most recent common ancestor; Evolutionary biology; RNA","retraction":null,"screen_n_in":null,"score":{"opus":0.005477281083759077,"gpt":0.2175765798546428,"spread":0.2120992987708837,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003976724,0.0001171783,0.0001774336,0.00008337266,0.00007411226,0.00001142819,0.0001723888,0.00009989511,0.000001848236],"category_scores_gemma":[0.0001750618,0.00009107553,0.0001762437,0.0001261917,0.00009087847,0.000002058832,0.00003826562,0.00009498842,7.96305e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009890165,"about_ca_system_score_gemma":0.0002287043,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001999328,"about_ca_topic_score_gemma":0.00004525956,"domain_scores_codex":[0.9988422,0.0001684378,0.0004667406,0.000134346,0.0001948265,0.0001933944],"domain_scores_gemma":[0.9991802,0.00001774723,0.0003444277,0.0001819834,0.0002320462,0.00004357475],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001887588,0.00004941482,0.008262941,0.000006277114,0.00007869579,0.000004266738,0.00003020934,0.0008888046,0.9878058,0.001941448,0.0001140822,0.0006292947],"study_design_scores_gemma":[0.003474459,0.002291094,0.1160446,0.00005358722,0.0001478645,0.0002860046,0.001208695,0.0001384678,0.8347462,0.006375743,0.03479949,0.0004337064],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9406476,0.05384883,0.004602329,0.0000840303,0.0003905198,0.0001069068,0.000003334245,5.674304e-7,0.0003158972],"genre_scores_gemma":[0.997175,0.001183874,0.001411269,0.0000117865,0.0001646932,0.00000351926,0.000001103132,0.00001205744,0.00003672529],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1530596,"threshold_uncertainty_score":0.3713952,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2068209788","doi":"10.1007/s00239-004-0305-3","title":"A “Green” Phosphoribulokinase in Complex Algae with Red Plastids: Evidence for a Single Secondary Endosymbiosis Leading to Haptophytes, Cryptophytes, Heterokonts, and Dinoflagellates","year":2006,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Protist diversity and phylogeny","field":"Biochemistry, Genetics and Molecular Biology","cited_by":71,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Montréal","funders":"","keywords":"Plastid; Biology; Endosymbiosis; Red algae; Lineage (genetic); Botany; Algae; RuBisCO; Phylogenetic tree; Phylogenetics; Evolutionary biology; Gene; Photosynthesis; Chloroplast; Genetics","retraction":null,"screen_n_in":null,"score":{"opus":0.01749690408992738,"gpt":0.2367685327565697,"spread":0.2192716286666423,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002018532,0.0001622802,0.0002266191,0.0001264987,0.00008030707,0.0000342454,0.0001477488,0.0001007957,0.000004501372],"category_scores_gemma":[0.00008888342,0.0001584221,0.0000920565,0.0001354823,0.0000564151,0.0000227919,0.00006814414,0.0001096127,0.00000103986],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008958585,"about_ca_system_score_gemma":0.00007054667,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001084946,"about_ca_topic_score_gemma":0.0001307432,"domain_scores_codex":[0.9990048,0.00005684862,0.0002864008,0.0002510163,0.0001601753,0.0002407889],"domain_scores_gemma":[0.9993688,0.00003313065,0.0002027531,0.0001350591,0.0001677281,0.0000925135],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001156967,0.00009018987,0.02166676,0.00005708829,0.00004445861,0.00005379452,0.00002171528,0.0003767404,0.9753258,0.00008137536,0.0005499034,0.0005751785],"study_design_scores_gemma":[0.002633672,0.003092182,0.1251804,0.0003723751,0.00008062248,0.0002773071,0.00004766457,0.0001133567,0.8642539,0.0006078277,0.002979796,0.0003608681],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9707555,0.004769289,0.02377464,0.0002142809,0.00005675677,0.0003092375,0.00002851765,0.000004320002,0.00008743459],"genre_scores_gemma":[0.9925699,0.00004193782,0.007078033,0.0001147964,0.0001190206,0.000008854206,0.00002356111,0.00001571707,0.0000281799],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1110719,"threshold_uncertainty_score":0.6460268,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2087734259","doi":"10.1007/s00239-005-0110-7","title":"Molecular Evolution of Cytochrome c Oxidase in High-Performance Fish (Teleostei: Scombroidei)","year":2006,"lang":"de","type":"article","venue":"Journal of Molecular Evolution","topic":"Physiological and biochemical adaptations","field":"Environmental Science","cited_by":70,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Queen's University; University of British Columbia","funders":"","keywords":"Teleostei; Biology; Cytochrome c oxidase; Fish <Actinopterygii>; Evolutionary biology; Zoology; Genetics; Fishery; Mitochondrion","retraction":null,"screen_n_in":null,"score":{"opus":0.004488178366779314,"gpt":0.1888386615370554,"spread":0.1843504831702761,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004554515,0.0002949374,0.0005161028,0.0002243249,0.00008103161,0.00002285625,0.0004355141,0.0002724704,0.0001089832],"category_scores_gemma":[0.0001269793,0.0002606686,0.0002871742,0.000882171,0.0003763573,0.0003993265,0.0001561793,0.0004974745,0.00007541221],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001178263,"about_ca_system_score_gemma":0.0001089925,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005782443,"about_ca_topic_score_gemma":0.00002171734,"domain_scores_codex":[0.9968014,0.0002402185,0.001244287,0.0003376837,0.0009060113,0.0004703828],"domain_scores_gemma":[0.9984627,0.00005010166,0.0009287184,0.0002733603,0.0001305687,0.0001545597],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001545849,0.0007326215,0.00404864,0.0000582063,0.00003270309,0.00008394539,0.00001213907,0.05654684,0.936782,0.0008568537,0.0002225,0.000468989],"study_design_scores_gemma":[0.001166477,0.0007231805,0.5457412,0.0003181542,0.0001068148,0.00003271487,0.00002446552,0.003546359,0.4410529,0.006916623,0.00009014614,0.0002809337],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9880664,0.00310406,0.007754392,0.0003940497,0.0002235932,0.0002449167,0.00003385865,0.000009505895,0.0001691666],"genre_scores_gemma":[0.9982736,0.0001342992,0.001297799,0.00008167067,0.0001431679,0.000004913626,0.00002326585,0.00001764508,0.00002361188],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5416926,"threshold_uncertainty_score":0.9999846,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1997626409","doi":"10.1007/s00239-002-2395-0","title":"Broad-Scale Analysis Contradicts the Theory That Generation Time Affects Molecular Evolutionary Rates in Plants","year":2003,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":69,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"","keywords":"Biology; Generation time; Generality; Taxon; Perennial plant; Evolutionary biology; Ecology; Molecular evolution; Phylogenetics; Genetics; Gene; Demography","retraction":null,"screen_n_in":null,"score":{"opus":0.006718528045153299,"gpt":0.2148663894579265,"spread":0.2081478614127732,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006840061,0.0001591797,0.0002207233,0.0002200134,0.0001033455,0.00003082202,0.0001920807,0.0001843892,0.00004913657],"category_scores_gemma":[0.0001187255,0.0001291113,0.0002627011,0.0003091486,0.00007324287,0.00001568479,0.00002907225,0.0001654842,0.000005943334],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006166626,"about_ca_system_score_gemma":0.0001116042,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000007318974,"about_ca_topic_score_gemma":0.00001631092,"domain_scores_codex":[0.9982877,0.0006900536,0.0002714264,0.0002031008,0.0003432627,0.0002045034],"domain_scores_gemma":[0.9992332,0.00002286725,0.000292272,0.0002462889,0.0001264351,0.00007897632],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001296355,0.00006385201,0.02574019,0.000005238346,0.0004711272,0.00003847763,0.00008060034,0.04331299,0.927681,0.001103608,0.001133224,0.0002401036],"study_design_scores_gemma":[0.002974474,0.000517934,0.3247743,0.00004366519,0.001087426,0.0004616873,0.0004054992,0.003669284,0.6550387,0.005277452,0.00514553,0.0006040925],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9507868,0.004721154,0.04362632,0.0001245407,0.0001752924,0.0001519184,0.00001180821,0.000003347307,0.0003988515],"genre_scores_gemma":[0.9985686,0.00008437957,0.0008352862,0.0002187756,0.00007337227,0.000002373806,0.00007885342,0.00001109139,0.0001272642],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2990341,"threshold_uncertainty_score":0.5265007,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2133080883","doi":"10.1007/s00239-003-2558-7","title":"Lateral Transfer and Recompartmentalization of Calvin Cycle Enzymes of Plants and Algae","year":2004,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Protist diversity and phylogeny","field":"Biochemistry, Genetics and Molecular Biology","cited_by":68,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of British Columbia; Canadian Institute for Advanced Research","funders":"","keywords":"Plastid; Biology; Fructose 1,6-bisphosphatase; Euglena; Endosymbiosis; Horizontal gene transfer; Fructose-bisphosphate aldolase; Biochemistry; Gene; Genetics; Aldolase A; Phylogenetics; Enzyme; Chloroplast","retraction":null,"screen_n_in":null,"score":{"opus":0.004815359600400944,"gpt":0.2072516004331781,"spread":0.2024362408327772,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008888942,0.0000499598,0.0001027677,0.0000400368,0.00001865209,0.000002973314,0.00003935694,0.000056987,0.000002172051],"category_scores_gemma":[0.000008517002,0.0000480809,0.00004080221,0.00002241389,0.00005170141,0.000006705915,0.00001692285,0.00003244322,9.178799e-8],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001061165,"about_ca_system_score_gemma":0.00002756526,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002346573,"about_ca_topic_score_gemma":0.000007708646,"domain_scores_codex":[0.9996093,0.00003139142,0.0001615303,0.00006200038,0.00008092066,0.00005486807],"domain_scores_gemma":[0.9997884,0.000002030958,0.00008199306,0.00004514297,0.00004885195,0.00003359414],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001731412,0.00005746304,0.01728384,0.0000294667,0.00006053652,0.000005199687,0.0001130764,0.0003833863,0.9812325,0.0003758712,0.00001965817,0.0002659054],"study_design_scores_gemma":[0.001224312,0.0004751785,0.08961674,0.00004565856,0.00002999773,0.0000992468,0.00004831366,0.0000233286,0.9073141,0.001012744,0.00005305525,0.00005734319],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9860775,0.002415939,0.01134047,0.00003447942,0.00003453623,0.00005202606,0.00001754732,6.199851e-7,0.00002686586],"genre_scores_gemma":[0.9992879,0.0002288951,0.0004309381,0.00001788179,0.00001580768,2.366428e-7,0.00001188464,0.000003153709,0.00000329076],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.07391836,"threshold_uncertainty_score":0.1960682,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1999654842","doi":"10.1007/s00239-008-9088-2","title":"Diagnosing Mitochondrial DNA Diversity: Applications of a Sentinel Gene Approach","year":2008,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":66,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"","keywords":"Biology; Mitochondrial DNA; Genetics; Gene; Evolutionary biology; Computational biology; Diversity (politics); DNA","retraction":null,"screen_n_in":null,"score":{"opus":0.01105796587016223,"gpt":0.2107926212070399,"spread":0.1997346553368776,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009964742,0.00009236102,0.0001681755,0.00007474398,0.00013864,0.000003734649,0.0001606007,0.00007840549,0.000001312858],"category_scores_gemma":[0.0000401398,0.00009075194,0.0001838977,0.00009908022,0.00008631589,0.000001557617,0.000171894,0.00006504351,5.567055e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002216132,"about_ca_system_score_gemma":0.00007439215,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009449403,"about_ca_topic_score_gemma":5.500439e-7,"domain_scores_codex":[0.9992417,0.00004076225,0.0002808262,0.0001304895,0.0001883429,0.0001178821],"domain_scores_gemma":[0.9992139,0.000006625045,0.0003054627,0.0001632365,0.0002576079,0.00005319862],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00005184179,0.0001227825,0.01148488,0.000009415288,0.0001298054,0.000005309696,0.00006995804,0.0006352045,0.9868456,0.00005078661,0.0004272253,0.0001672331],"study_design_scores_gemma":[0.002575428,0.000455882,0.08657604,0.00002406283,0.0002896045,0.0007615004,0.0002141722,0.0001675533,0.9028656,0.0007195493,0.004973389,0.0003772244],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8769799,0.003108985,0.119431,0.00003366202,0.00009771398,0.0001040579,0.000006302286,9.095874e-7,0.0002374559],"genre_scores_gemma":[0.9911042,0.0004173358,0.008094736,0.00003246673,0.0002983618,0.000004901756,0.000008649939,0.000009189928,0.00003014878],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1141243,"threshold_uncertainty_score":0.3700756,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2140150329","doi":"10.1007/s00239-001-0032-y","title":"A Phylogenomic Study of the OCTase Genes in Pseudomonas syringae Pathovars: The Horizontal Transfer of the argKtox Cluster and the Evolutionary History of OCTase Genes on Their Genomes","year":2002,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":65,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Infrastructure Canada","keywords":"Biology; Pseudomonas syringae; Horizontal gene transfer; Genome; Genetics; Gene; Pathovar; Gene cluster; Bacterial genome size; Most recent common ancestor; Pathogenicity island; Genome evolution; Phylogenetics; Evolutionary biology; Pseudomonas; Pseudomonadaceae; Bacteria","retraction":null,"screen_n_in":null,"score":{"opus":0.01361559739546104,"gpt":0.1659289509369114,"spread":0.1523133535414504,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007304928,0.0001710849,0.000347074,0.00003249764,0.0001355013,0.000006429534,0.0005001453,0.00006692158,0.00001290159],"category_scores_gemma":[0.00005939892,0.00004531696,0.0002947725,0.0002042358,0.0003992862,0.00005965637,0.0001271643,0.0002194202,3.655897e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001605547,"about_ca_system_score_gemma":0.00003039983,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001280287,"about_ca_topic_score_gemma":0.000273515,"domain_scores_codex":[0.9978389,0.0008657138,0.0005942698,0.0001558804,0.0003800042,0.000165231],"domain_scores_gemma":[0.9990241,0.000243052,0.0004363975,0.0001577847,0.0001120868,0.00002660336],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0004044124,0.0004701646,0.00781392,0.00001306984,0.0001299415,0.00001236753,0.001578539,0.000209553,0.9862921,0.00009672452,0.00007957486,0.002899698],"study_design_scores_gemma":[0.002680162,0.001316794,0.9740402,0.0001604099,0.0002984536,0.0004940659,0.004317334,0.00054502,0.01450455,0.0003683534,0.001055624,0.0002190354],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9726369,0.02575487,0.000006057934,0.0007446692,0.0002321412,0.0005049658,0.00008652502,0.000002243109,0.00003165342],"genre_scores_gemma":[0.9990534,0.0007654862,0.00001090531,0.00006275907,0.00007709732,0.00001023632,0.000001147812,0.000002228807,0.00001673948],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9717875,"threshold_uncertainty_score":0.1847972,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2114926154","doi":"10.1007/s00239-004-0172-y","title":"Adaptive Diversification of Vomeronasal Receptor 1 Genes in Rodents","year":2005,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Olfactory and Sensory Function Studies","field":"Neuroscience","cited_by":63,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"Hong Kong Institute of Education","keywords":"Biology; Negative selection; Nonsynonymous substitution; Gene; Genetics; Evolutionary biology; Pheromone; Subfamily; Vomeronasal organ; Genome; Receptor","retraction":null,"screen_n_in":null,"score":{"opus":0.08227631381780458,"gpt":0.2609980283814844,"spread":0.1787217145636798,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001804228,0.00006554601,0.0001350339,0.0001896762,0.0000441942,0.000004852991,0.00009437846,0.00003984323,0.00002907246],"category_scores_gemma":[0.0002084042,0.00005987475,0.00007871989,0.0001927247,0.00005600751,0.0002589796,0.0000206988,0.0001131139,0.00002104407],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001469656,"about_ca_system_score_gemma":0.00003030934,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003394247,"about_ca_topic_score_gemma":0.00000288329,"domain_scores_codex":[0.9990171,0.0001531747,0.0003180711,0.0001029475,0.00031543,0.00009332647],"domain_scores_gemma":[0.9993901,0.0000385235,0.000340925,0.0000715864,0.000126844,0.00003204197],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002074127,0.0001152209,0.003475841,0.000003827318,0.000009091701,0.000004815517,0.00023219,0.003456677,0.9893311,0.0004561414,0.0001632846,0.002544427],"study_design_scores_gemma":[0.001064693,0.0003766512,0.0711953,0.000046989,0.00002818727,0.00002998167,0.000607294,0.0009241179,0.9224703,0.0002431909,0.00288635,0.0001269254],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9920828,0.0004533146,0.00665878,0.0002535491,0.0002824356,0.00005904569,0.000003789478,0.000004471016,0.000201776],"genre_scores_gemma":[0.999254,0.00009342805,0.0004627453,0.00004604187,0.00006772071,6.722161e-7,2.97526e-7,0.000004460397,0.00007063196],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06771946,"threshold_uncertainty_score":0.2441622,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2146420402","doi":"10.1007/s00239-004-0218-1","title":"Comparison of the Yeast Proteome to Other Fungal Genomes to Find Core Fungal Genes","year":2005,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Fermentation and Sensory Analysis","field":"Agricultural and Biological Sciences","cited_by":62,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Simon Fraser University; University of Guelph","funders":"","keywords":"Biology; Genome; Gene; Genetics; GenBank","retraction":null,"screen_n_in":null,"score":{"opus":0.03381453287446001,"gpt":0.2841767595351228,"spread":0.2503622266606628,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001703343,0.00006936659,0.0001543007,0.00002945946,0.0000773247,0.00001697319,0.0001807514,0.00003823742,0.0001789305],"category_scores_gemma":[0.00003137003,0.00002548006,0.0001595696,0.0003091657,0.00001918462,0.00005212653,0.00002881766,0.00006273232,0.00002158029],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005715086,"about_ca_system_score_gemma":0.0000111936,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001874101,"about_ca_topic_score_gemma":0.0001153475,"domain_scores_codex":[0.9991162,0.00007965173,0.0003024222,0.0000833065,0.0003111782,0.0001072632],"domain_scores_gemma":[0.9995092,0.00001211096,0.0002080983,0.00004325291,0.0001451055,0.00008226635],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00005163291,0.00007042059,0.03046392,0.000001648548,0.00002405788,0.000001011709,0.000156644,0.004723426,0.9533204,0.00005173742,0.0003781437,0.01075692],"study_design_scores_gemma":[0.0001744584,0.0004604163,0.7732733,0.00003101622,0.000058957,0.00002583504,0.0006083957,0.0005162399,0.2140153,0.00007940019,0.01063421,0.0001224572],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9963656,0.0002717457,0.0002813758,0.002771612,0.00005939115,0.000141103,0.00001001953,0.000003269525,0.00009585825],"genre_scores_gemma":[0.9987209,0.00000227321,0.0004750124,0.0003911479,0.0001629465,0.000001781346,9.420484e-7,8.10907e-7,0.0002442253],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7428094,"threshold_uncertainty_score":0.1959164,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2151447787","doi":"10.1007/s00239-002-2406-1","title":"Effects of GC Content and Mutational Pressure on the Lengths of Exons and Coding Sequences","year":2003,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":61,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Ottawa","funders":"National Institute of General Medical Sciences","keywords":"Exon; GC-content; Biology; Genetics; Genome; Gene; GenBank; Coding region","retraction":null,"screen_n_in":null,"score":{"opus":0.01142767218675226,"gpt":0.220136931775308,"spread":0.2087092595885558,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003540817,0.0000615747,0.0001094685,0.00003263886,0.00003327071,0.000005410483,0.00005039328,0.0000576016,0.000002629221],"category_scores_gemma":[0.0004143468,0.00004219394,0.00005207553,0.00002757384,0.00007081563,0.000004286187,0.00001151302,0.0000494059,6.433934e-8],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000004432586,"about_ca_system_score_gemma":0.00004037103,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003153791,"about_ca_topic_score_gemma":4.976284e-7,"domain_scores_codex":[0.9993652,0.000175823,0.000178562,0.00007177456,0.0001486307,0.00006002042],"domain_scores_gemma":[0.9994855,0.00006452815,0.0002458584,0.00006157892,0.0001149435,0.00002757899],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00005328764,0.00002449513,0.0002275952,0.00004790203,0.00007882286,0.000003618327,0.00002976463,0.00005356143,0.9887731,0.01025826,0.0000174521,0.0004321192],"study_design_scores_gemma":[0.0003136738,0.0004626158,0.002802498,0.00009700903,0.00006139415,0.00006976482,0.00007569107,0.00002363309,0.9943887,0.001425251,0.0002365246,0.00004322097],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9777963,0.00736781,0.01444673,0.0001124053,0.00005142506,0.000115198,0.000002656844,5.373736e-7,0.0001069373],"genre_scores_gemma":[0.9988671,0.0002562259,0.0008012768,0.00003236913,0.00001689386,0.000002491085,5.231629e-7,0.000004367835,0.00001873567],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02107081,"threshold_uncertainty_score":0.1720619,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2066619389","doi":"10.1007/s00239-004-0338-7","title":"Evolution of Hox Clusters in Salmonidae: A Comparative Analysis Between Atlantic Salmon (Salmo salar) and Rainbow Trout (Oncorhynchus mykiss)","year":2005,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Developmental Biology and Gene Regulation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":60,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Salmo; Rainbow trout; Biology; Hox gene; Trout; Danio; Salmonidae; Synteny; Zebrafish; Genetics; Zoology; Evolutionary biology; Fishery; Gene; Genome; Fish <Actinopterygii>","retraction":null,"screen_n_in":null,"score":{"opus":0.007917958476577315,"gpt":0.255934655928925,"spread":0.2480166974523477,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005683116,0.0001767016,0.0004415077,0.0004460432,0.00004710881,0.0000099116,0.0001295829,0.0002377533,0.000004118832],"category_scores_gemma":[0.00005407401,0.0001686027,0.0002049788,0.0004437386,0.0001247575,0.00002413154,0.00005639373,0.0001555783,0.000001616469],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001931264,"about_ca_system_score_gemma":0.0001259454,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000409384,"about_ca_topic_score_gemma":0.0001704388,"domain_scores_codex":[0.9984235,0.0002530733,0.0006556365,0.0002383961,0.0002213184,0.0002081392],"domain_scores_gemma":[0.9990339,0.00002299864,0.0005381186,0.0001532435,0.0001664704,0.00008523236],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003255566,0.00008756214,0.442088,0.00001738737,0.0005361986,0.000006307868,0.0001555497,0.006271752,0.5491366,0.00005570034,0.00006761748,0.001251813],"study_design_scores_gemma":[0.001328551,0.000463091,0.909106,0.00005006874,0.0003880989,0.00006470413,0.0002040243,0.001237007,0.086509,0.0001276417,0.0003183891,0.0002034746],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9769695,0.003031412,0.0195189,0.0001866995,0.00003573909,0.0001458612,0.000006182092,0.000003372881,0.0001022978],"genre_scores_gemma":[0.997319,0.00008999131,0.002337008,0.00002275935,0.0001130956,0.000002675476,0.00007997826,0.000008188185,0.00002724627],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.467018,"threshold_uncertainty_score":0.6875417,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2110869665","doi":"10.1007/s00239-005-0255-4","title":"Thermal Adaptation of the Small Subunit Ribosomal RNA Gene: A Comparative Study","year":2006,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":59,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Concordia University; University of Ottawa; Dalhousie University","funders":"","keywords":"Biology; Ribosomal RNA; Archaea; Phylogenetic tree; Thermophile; 16S ribosomal RNA; Lineage (genetic); Gene; Genetics; Adaptation (eye); Phylogenetics; Evolutionary biology; Bacteria","retraction":null,"screen_n_in":null,"score":{"opus":0.01698221343567298,"gpt":0.2342675369760984,"spread":0.2172853235404254,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004636308,0.0001132549,0.0001688107,0.00005245964,0.00006741816,0.00001130014,0.0002307293,0.00008437381,0.000005523204],"category_scores_gemma":[0.00004014858,0.00008207963,0.0001832781,0.0001078155,0.00004613643,0.00000595154,0.00004553767,0.00009519178,0.000001210252],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002694068,"about_ca_system_score_gemma":0.0001089648,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000736678,"about_ca_topic_score_gemma":0.00004494357,"domain_scores_codex":[0.9986613,0.0004237989,0.0004133013,0.0001140588,0.0002668846,0.0001206937],"domain_scores_gemma":[0.99892,0.000009622137,0.0005534398,0.0002033297,0.0002839848,0.00002958948],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001283636,0.0002258644,0.001934313,0.000004041363,0.00007520185,0.000005777005,0.0001082512,0.00945105,0.9873707,0.000142345,0.00002587528,0.0005281612],"study_design_scores_gemma":[0.0007281962,0.0007645346,0.03406531,0.00001892674,0.00008268796,0.00003020964,0.0004802487,0.000198942,0.9630697,0.0003108378,0.0001556628,0.00009477722],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9365706,0.001132647,0.06166387,0.00004430107,0.0001344529,0.0002341412,0.000003238,0.000001901691,0.0002148582],"genre_scores_gemma":[0.9980976,0.000005474949,0.001648165,0.00001500141,0.0001527492,0.000005094463,0.000003956079,0.00001096957,0.00006097065],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06152703,"threshold_uncertainty_score":0.334711,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1996565452","doi":"10.1007/s00239-010-9426-z","title":"Gene Duplication and Divergence of Long Wavelength-Sensitive Opsin Genes in the Guppy, Poecilia reticulata","year":2010,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Animal Behavior and Reproduction","field":"Agricultural and Biological Sciences","cited_by":58,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University; Simon Fraser University","funders":"","keywords":"Biology; Guppy; Xiphophorus; Poecilia; Poeciliidae; Opsin; Gene duplication; Evolutionary biology; Genetics; Gene; Gene conversion; Genome; Zoology; Retinal; Botany; Rhodopsin","retraction":null,"screen_n_in":null,"score":{"opus":0.01122818025450569,"gpt":0.2247067715882673,"spread":0.2134785913337616,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005046277,0.00005935845,0.00009516282,0.00001876861,0.00005892504,0.0000114172,0.0001074759,0.00006635064,0.00000949755],"category_scores_gemma":[0.00007321527,0.00002169383,0.00005546917,0.0001739277,0.00007517825,0.00009765897,0.00002505608,0.0001598754,7.933298e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001487516,"about_ca_system_score_gemma":0.0000078824,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001051717,"about_ca_topic_score_gemma":0.00008192595,"domain_scores_codex":[0.9992827,0.00008143791,0.0002281492,0.0001145922,0.0002118817,0.00008119739],"domain_scores_gemma":[0.999503,0.00002529344,0.0002035558,0.00005171407,0.0001892643,0.00002713163],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00002652282,0.00004436147,0.03408931,0.000001851478,0.000003182834,0.00001077698,0.00006194264,0.00000601241,0.9458152,0.0001080824,0.00001027761,0.01982247],"study_design_scores_gemma":[0.00006076332,0.0001356569,0.8446507,0.000009169434,0.00001980296,0.0002359222,0.0001693151,0.00006275052,0.1543908,0.0001866552,0.00003601409,0.00004244599],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9984208,0.0003691541,0.0001649522,0.0008185262,0.0001142875,0.00009183279,0.000003003087,0.000002265943,0.00001518362],"genre_scores_gemma":[0.999481,0.0001097456,0.0002667602,0.00001461014,0.0001163316,8.932576e-7,0.000004229312,4.972878e-7,0.000005949954],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8105614,"threshold_uncertainty_score":0.08846488,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W225538698","doi":"10.1007/s002390010110","title":"mtDNA Sequence Diversity of Orangutans from the Islands of Borneo and Sumatra","year":2000,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Forensic and Genetic Research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":55,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Simon Fraser University","funders":"","keywords":"Biology; Haplotype; Land bridge; Biological dispersal; Evolutionary biology; Population; Context (archaeology); Archipelago; Haplogroup; Mitochondrial DNA; Ecology; Genetics; Paleontology; Gene; Demography; Genotype","retraction":null,"screen_n_in":null,"score":{"opus":0.01025340771719362,"gpt":0.2462490316139597,"spread":0.235995623896766,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002519879,0.00006032109,0.0001207431,0.00002230585,0.00004623376,0.000004386289,0.0001668715,0.00006911885,0.00003665652],"category_scores_gemma":[0.00004879137,0.00004295437,0.00008888763,0.00006454033,0.0001912078,0.000004056641,0.00006895262,0.00008133533,6.26223e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001000573,"about_ca_system_score_gemma":0.00006978808,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001691899,"about_ca_topic_score_gemma":0.0000171718,"domain_scores_codex":[0.9992999,0.00008252243,0.000202856,0.00008577741,0.0002380658,0.00009085135],"domain_scores_gemma":[0.9995006,0.00001408087,0.0001334696,0.0001551753,0.0001567727,0.00003990672],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002834214,0.00003745886,0.01911981,0.00001210461,0.0001088357,0.00001021129,0.0002094247,0.0001749567,0.9729422,0.00006024145,0.0007195241,0.006321861],"study_design_scores_gemma":[0.002138651,0.00170901,0.3057566,0.0001339153,0.0001893729,0.0001750048,0.0005329082,0.0003833168,0.6824921,0.003470989,0.002798531,0.0002195821],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9921704,0.003546653,0.003768547,0.0001526958,0.00002903897,0.00004819584,0.00002704536,5.908411e-7,0.0002568443],"genre_scores_gemma":[0.9985775,0.0006686447,0.0006130468,0.00003275308,0.00004732608,2.100986e-7,0.000007618706,0.000004113047,0.00004875336],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2904501,"threshold_uncertainty_score":0.1751628,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1966532618","doi":"10.1007/s00239-010-9352-0","title":"Evolution of the RpoS Regulon: Origin of RpoS and the Conservation of RpoS-Dependent Regulation in Bacteria","year":2010,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":55,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"rpoS; Regulon; Biology; Sigma factor; Genetics; Gene; Proteobacteria; Escherichia coli; Gene expression; Promoter","retraction":null,"screen_n_in":null,"score":{"opus":0.004078442283434182,"gpt":0.2071828539047462,"spread":0.203104411621312,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007569895,0.0001078018,0.0002384562,0.0001048367,0.00003094295,0.000006617275,0.0002259832,0.0002966419,0.000005435394],"category_scores_gemma":[0.0002131779,0.00007189444,0.0001249239,0.0001731011,0.0003578741,0.00001001604,0.00009236077,0.0001960653,1.203531e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003277353,"about_ca_system_score_gemma":0.0001668155,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001137842,"about_ca_topic_score_gemma":0.000173586,"domain_scores_codex":[0.9987125,0.000182157,0.0006440958,0.0001300453,0.0002206419,0.0001105732],"domain_scores_gemma":[0.9982905,0.00001510949,0.0009872852,0.0003213869,0.0003615904,0.00002408222],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004966751,0.00005757137,0.006126246,0.00002853386,0.0000378406,4.508027e-7,0.00003028329,0.00009586435,0.9888911,0.0036955,0.00003140963,0.0005085095],"study_design_scores_gemma":[0.001535826,0.0002655939,0.172811,0.00005441188,0.00005439885,0.00006409169,0.00004169902,0.0002787368,0.8222604,0.002171636,0.0003957055,0.00006654167],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.995572,0.0006170481,0.0023968,0.0007511512,0.000375109,0.0002486907,0.000009250255,0.000001330561,0.00002866165],"genre_scores_gemma":[0.9987563,0.0001116863,0.0009989203,0.00001867254,0.00007754342,0.000002767084,0.000006388595,0.000009076506,0.00001861751],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1666847,"threshold_uncertainty_score":0.293177,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2731780586","doi":"10.1007/s00239-017-9799-3","title":"Chemical Evolution and the Evolutionary Definition of Life","year":2017,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Origins and Evolution of Life","field":"Physics and Astronomy","cited_by":55,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Abiogenesis; Chemical evolution; Biology; Darwinism; Natural selection; Evolutionary biology; Biological evolution; Directed Molecular Evolution; Population; Selection (genetic algorithm); Directed evolution; Genetics; Mutant; Gene; Computer science","retraction":null,"screen_n_in":null,"score":{"opus":0.009775750492882245,"gpt":0.231204144587358,"spread":0.2214283940944758,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005662435,0.0001267374,0.0002932305,0.00009149133,0.0002988463,0.00004764993,0.0002671216,0.00006387464,0.00004516061],"category_scores_gemma":[0.0001861328,0.00009317761,0.0002506484,0.00006161564,0.0004528837,0.0003637757,0.00008399042,0.0002364865,0.000004677949],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008388589,"about_ca_system_score_gemma":0.000206385,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001657315,"about_ca_topic_score_gemma":7.164001e-7,"domain_scores_codex":[0.9987035,0.000106928,0.0005312758,0.0001187793,0.0003759177,0.0001636302],"domain_scores_gemma":[0.998076,0.00005457854,0.001105607,0.00030356,0.0003505104,0.0001097192],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.0005307524,0.0001784485,0.05473303,0.00002656679,0.0002230789,0.000002716909,0.00007472578,0.0001293052,0.02345337,0.9179305,0.001876374,0.000841142],"study_design_scores_gemma":[0.013797,0.0002912477,0.3703533,0.0003275037,0.0005816147,0.0001128549,0.0007414564,0.004189476,0.004901043,0.6021014,0.002062856,0.0005402342],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":"theoretical_or_conceptual","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9105408,0.001594626,0.08116727,0.001722332,0.0003803718,0.0001363825,0.00002359081,0.000006194889,0.004428427],"genre_scores_gemma":[0.9976006,0.00001877099,0.001873235,0.00002502774,0.0004453786,0.000003596464,0.000004532992,0.00001036638,0.00001847682],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3158291,"threshold_uncertainty_score":0.3799673,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2045041505","doi":"10.1007/s00239-010-9402-7","title":"Phylogenetic and Functional Analysis of the Vertebrate Cytochrome P450 2 Family","year":2010,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Pharmacogenetics and Drug Metabolism","field":"Pharmacology, Toxicology and Pharmaceutics","cited_by":55,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"","keywords":"Biology; Vertebrate; Phylogenetic tree; Phylogenetics; Genetics; Evolutionary biology; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.03655027407068639,"gpt":0.3525491873309859,"spread":0.3159989132602995,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007191224,0.0001235003,0.0002821685,0.0002875913,0.0001096372,0.000009694805,0.0001919161,0.0001681204,0.000175152],"category_scores_gemma":[0.00008076328,0.0000914741,0.0002879666,0.0005597416,0.0002033621,0.0000510938,0.0000666531,0.0006556337,0.000003235129],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002344786,"about_ca_system_score_gemma":0.0001364208,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000005518934,"about_ca_topic_score_gemma":0.000007461189,"domain_scores_codex":[0.9987084,0.0002781275,0.0004302363,0.0001238892,0.0002866877,0.0001727112],"domain_scores_gemma":[0.9989161,0.00006766123,0.0004329247,0.0001507353,0.0002934834,0.0001390442],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00009702324,0.0001060207,0.01147328,0.000007520673,0.001029245,0.000008124081,0.00005506652,0.00607318,0.977985,0.0008843071,0.0002229551,0.002058293],"study_design_scores_gemma":[0.001230544,0.00006475636,0.7914833,0.00000507438,0.00365627,0.00007059757,0.00002412227,0.01175881,0.1839843,0.001204119,0.00639704,0.0001210785],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9931254,0.003065537,0.002021895,0.0002663647,0.001061858,0.00009805121,0.00002470424,0.000003752873,0.0003324169],"genre_scores_gemma":[0.9988467,0.0001952553,0.000235535,0.0005109903,0.0001592229,0.000002350631,0.000002412801,0.00000943866,0.00003817393],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7940007,"threshold_uncertainty_score":0.3730206,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2110714217","doi":"10.1007/s00239-009-9201-1","title":"Comparative Genomics of Phylogenetically Diverse Unicellular Eukaryotes Provide New Insights into the Genetic Basis for the Evolution of the Programmed Cell Death Machinery","year":2009,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":53,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of New Brunswick","funders":"","keywords":"Biology; Evolutionary biology; Genomics; Comparative genomics; Biological evolution; Computational biology; Genetics; Genome; Gene","retraction":null,"screen_n_in":null,"score":{"opus":0.008491949900268319,"gpt":0.2555459587444538,"spread":0.2470540088441855,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000255849,0.0001666783,0.0002206804,0.00005547391,0.0001114602,0.00001376415,0.0004751573,0.0001070709,0.000001255955],"category_scores_gemma":[0.0001104004,0.00009449472,0.0003289428,0.0001672459,0.0001136422,0.000005617331,0.00007866332,0.0001479951,2.326527e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009073467,"about_ca_system_score_gemma":0.0003453555,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007116496,"about_ca_topic_score_gemma":0.00003702035,"domain_scores_codex":[0.9987987,0.0001238953,0.0004787555,0.0001572265,0.0002631473,0.0001782201],"domain_scores_gemma":[0.9987558,0.00004930902,0.0004388844,0.0003794875,0.0003126599,0.00006390562],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001518107,0.00008583489,0.000712759,0.00002285301,0.0001129087,8.69322e-7,0.0004204682,0.05324406,0.9424533,0.0001774862,0.00009935796,0.002518269],"study_design_scores_gemma":[0.0008944763,0.0009418418,0.05429403,0.00004697146,0.0004006266,0.00002374735,0.0005316746,0.007441544,0.9317521,0.00186857,0.001643863,0.0001605815],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6778286,0.01700477,0.3043769,0.0002439525,0.0001051238,0.0004145036,0.000002596261,0.000001729933,0.00002178033],"genre_scores_gemma":[0.9911273,0.0002655823,0.00835104,0.00004801209,0.0001573804,0.000005579238,0.000003500794,0.00001269164,0.00002890532],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3132987,"threshold_uncertainty_score":0.3853382,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1624362487","doi":"10.1007/s00239-015-9696-6","title":"Genomics of Adaptation to Multiple Concurrent Stresses: Insights from Comparative Transcriptomics of a Cichlid Fish from One of Earth’s Most Extreme Environments, the Hypersaline Soda Lake Magadi in Kenya, East Africa","year":2015,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Physiological and biochemical adaptations","field":"Environmental Science","cited_by":53,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Deutsche Forschungsgemeinschaft; Canadian Network for Research and Innovation in Machining Technology, Natural Sciences and Engineering Research Council of Canada; Alexander von Humboldt-Stiftung; Universität Konstanz; European Molecular Biology Organization","keywords":"Biology; Cichlid; Transcriptome; Extremophile; Extreme environment; Adaptation (eye); Tilapia; Gill; Freshwater fish; Zoology; Ecology; Gene; Fish <Actinopterygii>; Genetics; Fishery; Gene expression","retraction":null,"screen_n_in":null,"score":{"opus":0.06277612110933566,"gpt":0.2215324341778244,"spread":0.1587563130684888,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001069338,0.0001096437,0.0003018158,0.00004062159,0.00001927284,0.000004293402,0.0002207915,0.00006256765,0.0000441152],"category_scores_gemma":[0.00008597273,0.0000805395,0.00008877882,0.0001969308,0.0001748893,0.0001088066,0.0000592523,0.0001389743,0.000003754802],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001033553,"about_ca_system_score_gemma":0.00003354354,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005136784,"about_ca_topic_score_gemma":0.00109614,"domain_scores_codex":[0.9986104,0.000139319,0.0005933574,0.000144839,0.0004055094,0.0001065936],"domain_scores_gemma":[0.9991811,0.00007624613,0.0004667429,0.0001288475,0.00004690063,0.0001001876],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002351775,0.0004814781,0.001220785,0.000002742872,0.00003858392,0.000001477842,0.002660459,0.04467302,0.9502633,0.00002168576,0.0000553658,0.0003459511],"study_design_scores_gemma":[0.003208158,0.0009648275,0.3264503,0.000211538,0.0001771568,0.000001793848,0.005659579,0.03773838,0.6197152,0.003831217,0.001748132,0.0002936555],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9751611,0.0004099729,0.02375528,0.0001474032,0.00005063811,0.0001781937,0.0002446497,0.000001521832,0.00005120353],"genre_scores_gemma":[0.9957279,0.00003416619,0.004115918,0.0000315761,0.00002094954,0.000002937371,0.00005725178,0.000004840449,0.000004445511],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.330548,"threshold_uncertainty_score":0.3284305,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2001221860","doi":"10.1007/s00239-009-9276-8","title":"Origin of Self-Replicating Biopolymers: Autocatalytic Feedback Can Jump-Start the RNA World","year":2009,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Origins and Evolution of Life","field":"Physics and Astronomy","cited_by":52,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"","keywords":"Ribozyme; Autocatalysis; Polymerization; Biology; Ligase ribozyme; Biophysics; RNA; Polymer; Chemistry; Catalysis; Biochemistry","retraction":null,"screen_n_in":null,"score":{"opus":0.009095752443736452,"gpt":0.2479837411956325,"spread":0.2388879887518961,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003960757,0.0001529362,0.0002538214,0.0001795397,0.0001224984,0.00003341018,0.0002827594,0.00003298321,0.00007023112],"category_scores_gemma":[0.00001321244,0.0001136113,0.0002828167,0.000450186,0.00005690852,0.0001541471,0.0000225856,0.0002699536,0.000009053021],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001467529,"about_ca_system_score_gemma":0.0002426967,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001445143,"about_ca_topic_score_gemma":0.000004284222,"domain_scores_codex":[0.9985694,0.00006995085,0.0005959749,0.0001379699,0.0003820545,0.0002446017],"domain_scores_gemma":[0.9985887,0.00002851768,0.0007445189,0.0003047965,0.0002225624,0.0001108447],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002958469,0.002226793,0.06139734,0.00009697118,0.001719358,0.00003781114,0.001549906,0.0074657,0.4847091,0.364033,0.03363672,0.04283137],"study_design_scores_gemma":[0.01138448,0.003415091,0.2317157,0.001590627,0.002740864,0.0002548993,0.004654204,0.02236316,0.5009828,0.08332216,0.134744,0.002832047],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9645237,0.0008593468,0.02369178,0.004381386,0.0003582677,0.0002124722,0.00002097598,0.00002585064,0.005926183],"genre_scores_gemma":[0.9978849,0.000004991907,0.00136186,0.0001147165,0.0004190329,0.000001593281,0.000005063451,0.00001190728,0.0001959929],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2807109,"threshold_uncertainty_score":0.4632933,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2084081524","doi":"10.1007/s00239-009-9291-9","title":"Molecular Evolution of the mtDNA Encoded rps3 Gene Among Filamentous Ascomycetes Fungi with an Emphasis on the Ophiostomatoid Fungi","year":2009,"lang":"en","type":"article","venue":"Journal of Molecular Evolution","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":50,"is_retracted":false,"has_abstract":false,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Manitoba","funders":"","keywords":"Biology; Homing endonuclease; Intron; Gene; Genetics; Group I catalytic intron; Ribosomal protein; Group II intron; RNA; RNA splicing","retraction":null,"screen_n_in":null,"score":{"opus":0.006382952098565036,"gpt":0.2321518994249285,"spread":0.2257689473263635,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005919753,0.000258897,0.0002549946,0.0001448049,0.0001712391,0.00004504464,0.0006731759,0.0001890418,0.00001149234],"category_scores_gemma":[0.0001325674,0.000155705,0.0003075139,0.0003731198,0.0001897208,0.00001930099,0.00009062188,0.0003260751,0.000002802592],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001381803,"about_ca_system_score_gemma":0.0002881739,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002153863,"about_ca_topic_score_gemma":0.00001391091,"domain_scores_codex":[0.9975013,0.0004292229,0.0004761844,0.0002991082,0.0009216093,0.0003725815],"domain_scores_gemma":[0.9981307,0.00002142303,0.0004749476,0.0006989837,0.0005199011,0.0001540614],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004508868,0.0002421752,0.00182439,0.00001029382,0.0001358793,0.00002711052,0.00004469312,0.006356162,0.9891168,0.0004330165,0.0001486617,0.001209893],"study_design_scores_gemma":[0.0007637968,0.003061435,0.04399138,0.00009731024,0.00008337438,0.0001706552,0.0001005145,0.0007832921,0.9499056,0.0006147932,0.0002296154,0.0001982746],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9862452,0.004869452,0.007677858,0.0004482802,0.0001103446,0.0003369396,0.00001512601,0.000006531056,0.000290289],"genre_scores_gemma":[0.9987151,0.0001510698,0.0007115473,0.0001852779,0.000137127,0.000007270002,0.00001261148,0.00002872912,0.00005129043],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04216699,"threshold_uncertainty_score":0.6349463,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null}]}