{"meta":{"query_hash":"c3842a636095","filters":{"venue":"Pathogens and Disease"},"cohort_total":35,"direct_labels_cover":0,"predictions_cover":35,"exported":35,"export_cap":100000,"truncated":false,"label_status":"direct model label, unvalidated","prediction_status":"machine_predicted_unvalidated (Codex and Gemma teacher distillation)","score_status":"score_only:v0-immature-baseline","snapshot":{"source":"OpenAlex, pinned release, all 482 partitions","release":"2026-06-24","frame_built":"2026-07-12"},"permalink":"https://metacan.xera.ac/q/c3842a636095","api":"https://metacan.xera.ac/api/v1/cohort?venue=Pathogens+and+Disease"},"results":[{"id":"W1054027755","doi":"10.1093/femspd/ftv057","title":"What to do about pertussis vaccines? Linking what we know about pertussis vaccine effectiveness, immunology and disease transmission to create a better vaccine: Graphical Abstract Figure.","year":2015,"lang":"en","type":"review","venue":"Pathogens and Disease","topic":"Bacterial Infections and Vaccines","field":"Immunology and Microbiology","cited_by":32,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canada Research Chairs; Public Health Ontario; University of Toronto","funders":"National Institute of Allergy and Infectious Diseases; National Institute of General Medical Sciences","keywords":"Bordetella pertussis; Whooping cough; Pertussis vaccine; Medicine; Immunization; Transmission (telecommunications); Immunology; Population; Immunity; Vaccine efficacy; Disease; Virology; Herd immunity; Vaccination; Biology; Immune system; Environmental health; Computer science; Bacteria","score_opus":0.016500503560987947,"score_gpt":0.288519291969749,"score_spread":0.2720187884087611,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1054027755","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.0001348377,0.9950772,0.00020554393,0.002791171,0.00047103193,0.000010691955,0.00010852869,0.000012848052,0.0011881889],"genre_scores_gemma":[0.0008544638,0.9975611,0.0002770746,0.00058090815,0.00022705214,0.000008376909,0.00007580038,0.000003226452,0.00041204563],"study_design_codex":"design_other","study_design_gemma":"systematic_review","domain_scores_codex":[0.9995925,0.000110878325,0.00006168367,0.00006800874,0.00012955758,0.00003734391],"domain_scores_gemma":[0.99864954,0.000881508,0.00014574784,0.00003094663,0.00023673482,0.00005551042],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0012879819,0.0007396315,0.0014538988,0.0017925397,0.00023923186,0.0015669619,0.0008758661,0.0015477821,0.009034562],"category_scores_gemma":[0.0037194744,0.00034752503,0.00089996244,0.0016418924,0.00043240743,0.002629831,0.0006223551,0.0020703932,0.002595502],"study_design_candidate":"systematic_review","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00009822525,0.000042055577,0.00032565944,0.0556064,0.0002558051,0.0001302501,0.00013994148,0.00040141752,0.0010906952,0.0062277825,0.052531086,0.8831507],"study_design_scores_gemma":[0.000021089045,0.00009688885,0.0009258014,0.020634327,0.00038689456,0.00057858205,0.00012722373,0.000119289136,0.00045931,0.004599686,0.9720187,0.000032115917],"about_ca_topic_score_codex":0.0017970778,"about_ca_topic_score_gemma":0.0024178168,"teacher_disagreement_score":0.009034562,"about_ca_system_score_codex":0.0007556753,"about_ca_system_score_gemma":0.0019000436,"threshold_uncertainty_score":0.030223668},"labels":[],"label_agreement":null},{"id":"W1919886276","doi":"10.1093/femspd/ftv043","title":"<i>Chlamydia trachomatis</i>Virulence Factor CT135 is Stable<i>in vivo</i>but Highly Polymorphic<i>in vitro</i>","year":2015,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":24,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Public Health Agency of Canada","funders":"National Institutes of Health","keywords":"Biology; Chlamydia trachomatis; Virulence; Serotype; Pathogen; Chlamydia; Virology; Locus (genetics); Serial passage; Microbiology; Sexually transmitted disease; Gene; Population; In vivo; In vitro; Genetics","score_opus":0.026533276041009253,"score_gpt":0.26365903214396025,"score_spread":0.237125756102951,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1919886276","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99731785,0.00020342697,0.0014858629,0.000034963497,0.0000054045904,0.00001027191,0.00036115287,0.00002358468,0.0005574357],"genre_scores_gemma":[0.99675554,0.0001056117,0.0013603569,0.000033761866,0.00000356168,0.000008945091,0.0009998806,0.000019979378,0.00071231055],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9998128,0.000034592624,0.000017212547,0.000036463156,0.00004823278,0.000050758474],"domain_scores_gemma":[0.9998374,0.000030618263,0.000051671104,0.000027771255,0.000018696659,0.000033790246],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001746219,0.00021681511,0.00013311501,0.00015928784,0.00013974197,0.0003173257,0.00015674529,0.00013362104,0.0008294429],"category_scores_gemma":[0.00024304044,0.00008732145,0.00016513535,0.00017333544,0.00021598855,0.000094685456,0.00020664638,0.00038213943,0.00020792235],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000017274431,0.0000058780406,0.0005730711,0.000005141794,0.0000017755133,0.000013416862,0.0000074808954,0.0000112129555,0.99900466,0.000018928442,0.000013142948,0.00032806865],"study_design_scores_gemma":[0.0000058743385,0.00032255542,0.05342737,0.0000074050113,0.000026116499,0.0006917268,0.0000655936,0.0007724508,0.94251895,0.000035902416,0.0021178217,0.000008338464],"about_ca_topic_score_codex":0.002834044,"about_ca_topic_score_gemma":0.0030406627,"teacher_disagreement_score":0.002834044,"about_ca_system_score_codex":0.0002908355,"about_ca_system_score_gemma":0.00019991814,"threshold_uncertainty_score":0.005635023},"labels":[],"label_agreement":null},{"id":"W1969772511","doi":"10.1093/femspd/ftv016","title":"Potentiation of ciprofloxacin action against Gram-negative bacterial biofilms by a nitroxide","year":2015,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":45,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Biofilm; Pseudomonas aeruginosa; Ciprofloxacin; Nitric oxide; Nitroxide mediated radical polymerization; Microbiology; Chemistry; Bacteria; Gram-negative bacteria; Escherichia coli; Biology; Biochemistry; Antibiotics; Organic chemistry; Polymer","score_opus":0.01635589742036271,"score_gpt":0.24069507965391546,"score_spread":0.22433918223355276,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1969772511","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99632144,0.0017453294,0.00083892304,0.00009230402,0.000032128515,0.00003206583,0.000059365422,0.000018405375,0.0008599911],"genre_scores_gemma":[0.9962102,0.0012008487,0.0016047731,0.000030810916,0.000018393426,0.000025024981,0.0000570405,0.000004908191,0.0008479987],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9998585,0.00004309114,0.000012708547,0.000017467804,0.00004059272,0.000027512444],"domain_scores_gemma":[0.9998344,0.00004949208,0.000039287228,0.000017350023,0.000022507718,0.000036859696],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00018051358,0.00027529354,0.00027355444,0.00012296608,0.0001283645,0.00015247102,0.00020801772,0.00023212444,0.0009962716],"category_scores_gemma":[0.00023710546,0.00011463915,0.00016710165,0.000055556968,0.0001760364,0.00013410188,0.00020473615,0.00037317292,0.00013667291],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00017996423,0.00005973526,0.00010183671,0.000055565386,0.000004482418,0.000024606767,0.000010152751,0.00004994387,0.9978288,0.000018199835,0.000021502314,0.0016452158],"study_design_scores_gemma":[0.00005565117,0.003266725,0.00553409,0.000016891458,0.000022379852,0.00012617579,0.00002438876,0.00049024785,0.98920244,0.000017370918,0.001237525,0.0000061395167],"about_ca_topic_score_codex":0.0006210959,"about_ca_topic_score_gemma":0.0015781086,"teacher_disagreement_score":0.0009962716,"about_ca_system_score_codex":0.00010156444,"about_ca_system_score_gemma":0.00020531971,"threshold_uncertainty_score":0.0033328533},"labels":[],"label_agreement":null},{"id":"W1969844821","doi":"10.1111/2049-632x.12165","title":"A personal history of research on microbial biofilms and biofilm infections","year":2014,"lang":"en","type":"review","venue":"Pathogens and Disease","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":94,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Montana State University; University of Montana; University of Calgary; Cystic Fibrosis Foundation","keywords":"Biofilm; Microbiology; Biology; Bacteria; Genetics","score_opus":0.0485562620156641,"score_gpt":0.32581301705666627,"score_spread":0.27725675504100217,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1969844821","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.000076380726,0.98828936,0.00015094492,0.0023567183,0.0038718039,0.0000054809866,0.00003361356,0.000015860183,0.0051998612],"genre_scores_gemma":[0.0011346117,0.98257303,0.0003017246,0.0029006393,0.00469037,0.000013029302,0.00008096218,0.000013025983,0.008292682],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.9993616,0.00011677479,0.0000689828,0.00012320108,0.00027139304,0.00005807001],"domain_scores_gemma":[0.99814403,0.0008509618,0.00014577579,0.00007707175,0.00045287737,0.00032928243],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000997983,0.00095991703,0.0015053593,0.0039157905,0.0008691052,0.0021818047,0.0010559976,0.0025135179,0.023183882],"category_scores_gemma":[0.0029321609,0.00032619873,0.00058950175,0.004666004,0.0014874912,0.0033889555,0.0020269395,0.003938509,0.014675792],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008352848,0.00010397547,0.00029288372,0.009352498,0.00004307159,0.00035959086,0.00034978057,0.00014690605,0.0012125751,0.0082805175,0.29003555,0.689739],"study_design_scores_gemma":[0.0000027275535,0.000021733254,0.00019959433,0.0014500062,0.000009734342,0.0005018828,0.00003175615,0.0000070916362,0.00007302756,0.0008558529,0.99683857,0.000008039235],"about_ca_topic_score_codex":0.0009974645,"about_ca_topic_score_gemma":0.0018377439,"teacher_disagreement_score":0.023183882,"about_ca_system_score_codex":0.0010383441,"about_ca_system_score_gemma":0.0018737253,"threshold_uncertainty_score":0.0775578},"labels":[],"label_agreement":null},{"id":"W1993363541","doi":"10.1111/2049-632x.12174","title":"A putative de-<i>N</i>-acetylase of the PIG-L superfamily affects fluoroquinolone tolerance in<i>Pseudomonas aeruginosa</i>","year":2014,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":28,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Fonds Wetenschappelijk Onderzoek; Belgian Federal Science Policy Office; Office of Science; University of Guelph","keywords":"Pseudomonas aeruginosa; SUPERFAMILY; Microbiology; Biology; Chemistry; Bacteria; Genetics; Biochemistry; Gene","score_opus":0.004727804934738183,"score_gpt":0.21262726810855637,"score_spread":0.2078994631738182,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W1993363541","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99577725,0.00044352267,0.0029152925,0.000077510595,0.000011350477,0.000013456201,0.00030388447,0.000060703154,0.0003969383],"genre_scores_gemma":[0.995006,0.0003157385,0.0022665036,0.00007939932,0.000006803594,0.000020481377,0.00077019644,0.000036004018,0.0014987754],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9998976,0.000018112944,0.0000096260255,0.000027212072,0.00002398509,0.000023416787],"domain_scores_gemma":[0.999861,0.00004134133,0.00003965866,0.0000134774755,0.000011121319,0.00003342184],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008380475,0.00035867046,0.0002647109,0.00013819148,0.00008433257,0.00024251868,0.00022859799,0.0003223741,0.0006954418],"category_scores_gemma":[0.00016767783,0.000114632596,0.00026511148,0.00011393558,0.00022051507,0.00012934943,0.00018577317,0.00039937507,0.00029954637],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000038683407,0.000011550302,0.00023660803,0.000009764397,0.0000016947844,0.000035881683,0.000003584524,0.000018461908,0.9991824,0.000012837701,0.000008224627,0.000440182],"study_design_scores_gemma":[0.000010083628,0.00018875375,0.021324117,0.000004910849,0.000017876207,0.0004112951,0.000030841013,0.001161839,0.975545,0.000050439638,0.0012478462,0.0000069105236],"about_ca_topic_score_codex":0.0010257942,"about_ca_topic_score_gemma":0.00081302837,"teacher_disagreement_score":0.0010257942,"about_ca_system_score_codex":0.0002817981,"about_ca_system_score_gemma":0.00018388519,"threshold_uncertainty_score":0.0023264885},"labels":[],"label_agreement":null},{"id":"W2010790707","doi":"10.1093/femspd/ftv022","title":"F protein increases CD4+CD25+ T cell population in patients with chronic hepatitis C","year":2015,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Immune Cell Function and Interaction","field":"Immunology and Microbiology","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal","funders":"Tarbiat Modares University; Isfahan University of Medical Sciences; King's College London","keywords":"IL-2 receptor; FOXP3; Immunology; Population; Immune system; Biology; Flow cytometry; Peripheral blood mononuclear cell; Antibody; T cell; Virology; Medicine; Genetics; In vitro","score_opus":0.006059892885006771,"score_gpt":0.19044557667522027,"score_spread":0.1843856837902135,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2010790707","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99891436,0.00050035864,0.0001098397,0.000034043373,0.000009463523,0.00001097362,0.000037567537,0.0000091002785,0.00037444333],"genre_scores_gemma":[0.9993316,0.00013430735,0.0000987169,0.000039718143,0.000014428773,0.00001263798,0.000048826856,0.000001720524,0.00031813554],"study_design_codex":"observational","study_design_gemma":"observational","domain_scores_codex":[0.99991655,0.00002199084,0.00000795348,0.00001674512,0.000015125516,0.000021537915],"domain_scores_gemma":[0.99984336,0.000045323777,0.00003901219,0.0000072965554,0.000017750586,0.000047244248],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00012566913,0.00022556706,0.0002589831,0.000295628,0.00032911345,0.00015371093,0.00006834298,0.0002868467,0.001381841],"category_scores_gemma":[0.00036012128,0.000110155415,0.00013018082,0.00015353385,0.000149129,0.00011058271,0.00010021622,0.00029074153,0.00011758616],"study_design_candidate":"observational","study_design_consensus":"observational","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.01143221,0.0013663011,0.55660653,0.00037901683,0.00014649695,0.003370796,0.00083777943,0.0003303555,0.37655595,0.00012468705,0.0012048474,0.047644943],"study_design_scores_gemma":[0.0001577694,0.0038130926,0.9785809,0.000027031578,0.00010784538,0.0028909708,0.00029052183,0.0006155581,0.011330309,0.00008751127,0.0020834303,0.000015068516],"about_ca_topic_score_codex":0.0006733352,"about_ca_topic_score_gemma":0.0009071753,"teacher_disagreement_score":0.001381841,"about_ca_system_score_codex":0.00011574659,"about_ca_system_score_gemma":0.00010226855,"threshold_uncertainty_score":0.0046227574},"labels":[],"label_agreement":null},{"id":"W2012190419","doi":"10.1111/2049-632x.12168","title":"Promising results of cranberry in the prevention of oral<i>Candida</i>biofilms","year":2014,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":30,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval","funders":"","keywords":"Candida albicans; Candida glabrata; CRANBERRY JUICE; Proanthocyanidin; Biofilm; Food science; Phytochemical; Chemistry; Microbiology; Context (archaeology); Grape seed extract; Vaccinium myrtillus; Corpus albicans; Biology; Botany; Polyphenol; Bacteria; Biochemistry; Antioxidant","score_opus":0.018911258035120667,"score_gpt":0.2861537897698907,"score_spread":0.26724253173477003,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2012190419","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.95062673,0.046003725,0.0007517845,0.00037724237,0.000051678115,0.000059376693,0.000119295335,0.00003050492,0.001979678],"genre_scores_gemma":[0.9776583,0.017793264,0.0025304153,0.00022410062,0.000041641502,0.000017385568,0.00017351902,0.0000089022515,0.0015525055],"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","domain_scores_codex":[0.9999218,0.000022028591,0.0000048846214,0.000015444559,0.000018436811,0.000017384386],"domain_scores_gemma":[0.9999281,0.000019061186,0.000015116218,0.0000060548914,0.000012956717,0.000018631517],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00019963754,0.00039136142,0.00032754525,0.0002869586,0.00018738817,0.00032460326,0.00017674868,0.0003153422,0.0012773758],"category_scores_gemma":[0.00014318558,0.000071116585,0.00035129924,0.00014947566,0.00018224197,0.00021527143,0.0001960568,0.00037022404,0.000104195846],"study_design_candidate":"observational","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0014851913,0.0006241369,0.0010601163,0.0009322487,0.00007407979,0.0002142879,0.000076499804,0.00011539235,0.93959284,0.0001282358,0.00016996359,0.055526968],"study_design_scores_gemma":[0.00024767566,0.020359423,0.047802005,0.0003049221,0.00059307367,0.001239612,0.00020044192,0.00041130168,0.90646094,0.00015291384,0.022202514,0.000025183848],"about_ca_topic_score_codex":0.000679029,"about_ca_topic_score_gemma":0.0018553653,"teacher_disagreement_score":0.0012773758,"about_ca_system_score_codex":0.00013514087,"about_ca_system_score_gemma":0.00015187929,"threshold_uncertainty_score":0.0042732954},"labels":[],"label_agreement":null},{"id":"W2014313053","doi":"10.1111/2049-632x.12104","title":"Plasmid-mediated transformation tropism of chlamydial biovars","year":2013,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":33,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Manitoba","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health","keywords":"Plasmid; Biology; Chlamydia trachomatis; Virulence; Transformation (genetics); Tropism; Shuttle vector; Microbiology; Virology; Serotype; Tissue tropism; Gene; Vector (molecular biology); Genetics; Virus; Recombinant DNA","score_opus":0.010078115108271331,"score_gpt":0.23432894978915056,"score_spread":0.22425083468087922,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2014313053","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9717614,0.00069825293,0.023576468,0.00013051459,0.000043959266,0.00023328509,0.00064583507,0.00035684262,0.0025534844],"genre_scores_gemma":[0.9772159,0.00051152316,0.01590217,0.000057081703,0.000012890854,0.00016240528,0.0021592022,0.00013804944,0.003840769],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99947244,0.00016947495,0.000050383504,0.00011393189,0.00010001291,0.00009379936],"domain_scores_gemma":[0.9996809,0.00013740067,0.00006043453,0.00006464422,0.00002070872,0.00003589527],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00037718078,0.00044346292,0.0002477931,0.00034617144,0.00017145937,0.0003276861,0.00036566495,0.00028675864,0.001700891],"category_scores_gemma":[0.00039718015,0.00015734052,0.0003064589,0.00018526248,0.00032664562,0.0002069678,0.00076291163,0.0008165879,0.0006301113],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000029688319,0.000024222052,0.00014750838,0.000020366904,0.0000023022899,0.00002553861,0.00002395573,0.000019781515,0.99876887,0.00011130695,0.000020398997,0.0008061304],"study_design_scores_gemma":[0.000011000953,0.00039757145,0.0025487668,0.000006269917,0.000012814708,0.00040631043,0.00003675713,0.0006351553,0.9942227,0.000053165306,0.001661156,0.000008284251],"about_ca_topic_score_codex":0.0006676835,"about_ca_topic_score_gemma":0.0006841564,"teacher_disagreement_score":0.001700891,"about_ca_system_score_codex":0.0002748991,"about_ca_system_score_gemma":0.0002455368,"threshold_uncertainty_score":0.0056899786},"labels":[],"label_agreement":null},{"id":"W2047992675","doi":"10.1111/2049-632x.12045","title":"Genome sequences of 65<i>Helicobacter pylori</i>strains isolated from asymptomatic individuals and patients with gastric cancer, peptic ulcer disease, or gastritis","year":2013,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Helicobacter pylori-related gastroenterology studies","field":"Medicine","cited_by":22,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":true,"ca_institutions":"University of Alberta","funders":"National Institute of Allergy and Infectious Diseases; National Institute of Diabetes and Digestive and Kidney Diseases; National Cancer Institute; National Institutes of Health","keywords":"Helicobacter pylori; Gastritis; Asymptomatic; Cancer; Peptic ulcer; Disease; Peptic; Gastroenterology; Medicine; Spirillaceae; Internal medicine; Biology; Microbiology","score_opus":0.011347824638384166,"score_gpt":0.22842117961639863,"score_spread":0.21707335497801447,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2047992675","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9737553,0.0011508082,0.0004241999,0.00014465995,0.000021250225,0.000068278976,0.0224178,0.000024004088,0.001993677],"genre_scores_gemma":[0.9240057,0.0012162196,0.0045413338,0.00033809693,0.000023837621,0.0000594677,0.067750715,0.000030765026,0.0020339263],"study_design_codex":"observational","study_design_gemma":"observational","domain_scores_codex":[0.99984586,0.0000143767775,0.00001961964,0.000034947247,0.000049272006,0.00003583965],"domain_scores_gemma":[0.9997054,0.000047425277,0.00007812354,0.000019901725,0.00008932715,0.000059653292],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00010851618,0.00024219864,0.00025135904,0.0006864739,0.00044612563,0.00031895688,0.00015164516,0.00028694133,0.0009987031],"category_scores_gemma":[0.0004668536,0.00011047498,0.00031510988,0.0014672135,0.000178661,0.00008100231,0.00021254459,0.00030991185,0.00029978465],"study_design_candidate":"observational","study_design_consensus":"observational","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.001481505,0.00027738826,0.6506028,0.00049467804,0.00027169593,0.0031349661,0.0037661,0.0005593848,0.2787888,0.00025518602,0.0056374576,0.05473004],"study_design_scores_gemma":[0.000017781755,0.00016538853,0.9818902,0.000027088096,0.00009184862,0.0015331882,0.0007672984,0.00013156493,0.0050057555,0.000025322237,0.0103358235,0.000008913949],"about_ca_topic_score_codex":0.07472907,"about_ca_topic_score_gemma":0.09909887,"teacher_disagreement_score":0.07472907,"about_ca_system_score_codex":0.00038548897,"about_ca_system_score_gemma":0.0010003038,"threshold_uncertainty_score":0.14858824},"labels":[],"label_agreement":null},{"id":"W2054615832","doi":"10.1093/femspd/ftv031","title":"Host gene expression for Mycobacterium avium subsp. paratuberculosis infection in human THP-1 macrophages","year":2015,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":12,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Agriculture and Agri-Food Canada","funders":"Research Institute for Veterinary Science, College of Veterinary Medicine, Seoul National University; Rural Development Administration","keywords":"Paratuberculosis; Mycobacterium avium subspecies paratuberculosis; Biology; Immune system; Microbiology; Mycobacterium; Gene; CXCL10; Chemokine; CCL5; Immunology; Virology; Genetics; Bacteria; T cell","score_opus":0.03430783654464337,"score_gpt":0.3157865638093571,"score_spread":0.28147872726471374,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2054615832","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99379313,0.0013556996,0.0015409974,0.00006048031,0.000021080621,0.000028386536,0.002404234,0.000024404442,0.0007714167],"genre_scores_gemma":[0.99143445,0.0011021022,0.0035253365,0.00009480897,0.0000137509705,0.00012643456,0.0022924428,0.000009301515,0.0014013281],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.999782,0.000034514913,0.000013314783,0.00005663942,0.000052606727,0.000060879203],"domain_scores_gemma":[0.9999126,0.000027575297,0.000017886354,0.00000889463,0.000019680208,0.000013375018],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00020587996,0.00018277064,0.00029597039,0.000350108,0.00023126179,0.00032502593,0.000066835535,0.00024079089,0.0012235211],"category_scores_gemma":[0.00015884312,0.00011264249,0.00027848993,0.00037904223,0.0001467651,0.000095029456,0.00012605269,0.0002786676,0.00039484448],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00048544933,0.000055479162,0.0050478172,0.00013583527,0.00001609211,0.00012667375,0.00016499705,0.00017116072,0.99154484,0.000043514297,0.00009299983,0.002115152],"study_design_scores_gemma":[0.000073669624,0.0015276914,0.25071016,0.00006756863,0.00016830965,0.001380303,0.0011623959,0.0048335525,0.73486364,0.00026023225,0.0049171904,0.000035273326],"about_ca_topic_score_codex":0.00042759496,"about_ca_topic_score_gemma":0.0007493154,"teacher_disagreement_score":0.0012235211,"about_ca_system_score_codex":0.00013418656,"about_ca_system_score_gemma":0.00019417278,"threshold_uncertainty_score":0.0040931106},"labels":[],"label_agreement":null},{"id":"W2069284419","doi":"10.1111/2049-632x.12015","title":"Eradication of<i>Pseudomonas aeruginosa</i>biofilms on cultured airway cells by a fosfomycin/tobramycin antibiotic combination","year":2012,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Cystic Fibrosis Research Advances","field":"Medicine","cited_by":49,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Gilead Sciences (Canada)","funders":"National Institute of Allergy and Infectious Diseases","keywords":"Tobramycin; Fosfomycin; Pseudomonas aeruginosa; Microbiology; Biofilm; Antibiotics; Aminoglycoside; Cystic fibrosis; Pharmacology; Biology; Chemistry; Bacteria; Gentamicin","score_opus":0.009997110179138237,"score_gpt":0.2652672480570643,"score_spread":0.2552701378779261,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2069284419","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9885451,0.005469603,0.0030598955,0.00021695258,0.00009995205,0.0001267749,0.000409185,0.00010858222,0.0019639933],"genre_scores_gemma":[0.9839558,0.0029811151,0.00987957,0.0001496913,0.000042316096,0.00011804461,0.00063394645,0.000047614572,0.0021918062],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9996903,0.00006378892,0.000031237843,0.000059577516,0.00010166868,0.000053441727],"domain_scores_gemma":[0.9998832,0.00002191367,0.000035561057,0.000013622166,0.000021357999,0.000024438028],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00015881496,0.00052654353,0.0009140077,0.00017266572,0.00019122352,0.00038220442,0.0003267431,0.0004158298,0.0009036754],"category_scores_gemma":[0.0002077985,0.00013519243,0.00041575247,0.00018537982,0.00016175542,0.00023922979,0.00031424017,0.00064540835,0.00030993577],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00010194097,0.000032405223,0.00008167365,0.00004181539,0.0000062498602,0.000017957977,0.000011951279,0.00004550265,0.99814856,0.00001359559,0.000046451554,0.0014518923],"study_design_scores_gemma":[0.00002447667,0.0013350555,0.0022069493,0.000020739211,0.000031977313,0.00017902078,0.000029377577,0.0006310353,0.9929991,0.0000139273125,0.0025214383,0.000006944964],"about_ca_topic_score_codex":0.00084861345,"about_ca_topic_score_gemma":0.0013065787,"teacher_disagreement_score":0.0009140077,"about_ca_system_score_codex":0.000245468,"about_ca_system_score_gemma":0.00025311726,"threshold_uncertainty_score":0.003023088},"labels":[],"label_agreement":null},{"id":"W2071605567","doi":"10.1111/2049-632x.12033","title":"<i>Pseudomonas aeruginosa</i>: new insights into pathogenesis and host defenses","year":2013,"lang":"en","type":"review","venue":"Pathogens and Disease","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1298,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Pseudomonas aeruginosa; Virulence; Biofilm; Microbiology; Biology; Pathogenesis; Host (biology); Antibiotics; Bacteria; Antibiotic resistance; Host resistance; Immunology; Gene; Genetics","score_opus":0.017619563509956526,"score_gpt":0.2542091962787671,"score_spread":0.23658963276881056,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2071605567","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.00011402317,0.9976295,0.00013073445,0.0004204611,0.00038058503,0.0000026511736,0.000016844342,0.00000886423,0.0012963235],"genre_scores_gemma":[0.0006411304,0.99778384,0.00016129408,0.00020273398,0.00025380834,0.000003244234,0.000030138059,0.00000180601,0.00092203636],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.99981767,0.000023252649,0.000019210833,0.000026588252,0.000092037604,0.000021352527],"domain_scores_gemma":[0.99974054,0.00008345642,0.000030591367,0.000008325351,0.00009881504,0.00003819602],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004025349,0.0007032764,0.0010708893,0.001977633,0.00032385797,0.00095058326,0.00066896714,0.0010371282,0.0044316254],"category_scores_gemma":[0.00063233025,0.0001971367,0.00040833087,0.0022736208,0.0004936975,0.001575413,0.00076980045,0.0018041021,0.0029430967],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00007116811,0.00005476349,0.00021128081,0.016188778,0.00005333479,0.00023915104,0.00010518727,0.00023675422,0.005183346,0.005320647,0.0559163,0.91641927],"study_design_scores_gemma":[0.000005828332,0.0000574864,0.00060899806,0.0021229074,0.000029701105,0.00096573355,0.000052741318,0.000049829483,0.00046557235,0.0017294828,0.9938996,0.000012127159],"about_ca_topic_score_codex":0.00096130354,"about_ca_topic_score_gemma":0.0015160743,"teacher_disagreement_score":0.0044316254,"about_ca_system_score_codex":0.0006712637,"about_ca_system_score_gemma":0.001061221,"threshold_uncertainty_score":0.0148252845},"labels":[],"label_agreement":null},{"id":"W2071903583","doi":"10.1111/2049-632x.12122","title":"Activation of NADPH oxidase is essential, but not sufficient, in controlling intracellular multiplication of<i>Burkholderia pseudomallei</i>in primary human monocytes","year":2013,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Burkholderia infections and melioidosis","field":"Medicine","cited_by":9,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Thailand Research Fund; National Science and Technology Development Agency; University of Calgary","keywords":"Burkholderia pseudomallei; NADPH oxidase; Intracellular; Apocynin; Intracellular parasite; Microbiology; Biology; Melioidosis; Oxidase test; Reactive oxygen species; Cell biology; Biochemistry; Bacteria; Enzyme","score_opus":0.014549483207954765,"score_gpt":0.24638857564911346,"score_spread":0.2318390924411587,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2071903583","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99368894,0.002971532,0.0018990972,0.0001859907,0.000039967916,0.000024867177,0.00017121165,0.00003425376,0.0009840892],"genre_scores_gemma":[0.99717474,0.0007771201,0.0011442244,0.000040646326,0.000016980272,0.000024566261,0.00023330149,0.0000035300852,0.0005848163],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99980265,0.000058853544,0.00002310506,0.000028240229,0.000031352236,0.000055801233],"domain_scores_gemma":[0.9998952,0.000028298115,0.00001817561,0.000017418175,0.000017315555,0.000023672163],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00021061339,0.00018205233,0.00020189772,0.00005718383,0.00011053031,0.00025770772,0.000089328125,0.0002010956,0.00066933804],"category_scores_gemma":[0.00017806947,0.00009169952,0.00010659066,0.00005316119,0.00011185706,0.0001332461,0.0001415086,0.00029100192,0.00025440467],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0003266796,0.000036648835,0.00069165067,0.000046019784,0.0000033815902,0.00008956742,0.000018254816,0.000016469154,0.99732345,0.000049960057,0.00003935804,0.0013586355],"study_design_scores_gemma":[0.00007287345,0.0012546697,0.024068844,0.000021112539,0.000027088747,0.0008710198,0.00009999318,0.00067903183,0.96858984,0.000088035384,0.004221916,0.00000553397],"about_ca_topic_score_codex":0.00038096707,"about_ca_topic_score_gemma":0.00055354816,"teacher_disagreement_score":0.00066933804,"about_ca_system_score_codex":0.000113198104,"about_ca_system_score_gemma":0.00016841012,"threshold_uncertainty_score":0.002239108},"labels":[],"label_agreement":null},{"id":"W2117414261","doi":"10.1111/2049-632x.12021","title":"Colonization of gerbils with<i>Helicobacter pylori</i>O-chain-deficient mutant SS1 HP0826::Kan results in gastritis and is associated with<i>de novo</i>synthesis of extended homopolymers","year":2013,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Helicobacter pylori-related gastroenterology studies","field":"Medicine","cited_by":5,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"National Research Council Canada","funders":"European Commission; University of Leeds","keywords":"Helicobacter pylori; Gastritis; Biology; Microbiology; Gerbil; Mutant; Metaplasia; Intestinal metaplasia; Atrophy; Pathology; Gene; Medicine; Internal medicine; Biochemistry","score_opus":0.00817932711114324,"score_gpt":0.21452969586536064,"score_spread":0.2063503687542174,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2117414261","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99846375,0.0002541337,0.00044418435,0.000045177403,0.000013247079,0.000011457833,0.00029696198,0.00003557287,0.0004354705],"genre_scores_gemma":[0.9942405,0.00042740034,0.001464946,0.0000813576,0.0000098443215,0.000036833128,0.0009711291,0.000031862797,0.0027361081],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.999833,0.000020771113,0.000020158066,0.000052264604,0.000031878833,0.00004193552],"domain_scores_gemma":[0.9997851,0.000018041226,0.000071944945,0.00002525245,0.000012325302,0.00008733662],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00013277693,0.0005169035,0.00024154695,0.0002739838,0.00013300426,0.00022167242,0.00019544776,0.00040921898,0.0013348426],"category_scores_gemma":[0.00009031595,0.000276337,0.00036426052,0.0001275148,0.0003064905,0.00023524369,0.0002768251,0.00071179995,0.0004303148],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000108331275,0.000021452895,0.00019848379,0.000014602145,0.0000026547884,0.00002477431,0.000010536907,0.000008099347,0.999451,0.000014954242,0.000008315086,0.00013684186],"study_design_scores_gemma":[0.000027397484,0.0019662594,0.03168,0.00001408526,0.00002938766,0.00071935845,0.00009950378,0.00044143145,0.9639025,0.00004931157,0.0010595577,0.000011253537],"about_ca_topic_score_codex":0.00050415425,"about_ca_topic_score_gemma":0.00078464166,"teacher_disagreement_score":0.0013348426,"about_ca_system_score_codex":0.0001919881,"about_ca_system_score_gemma":0.0001361952,"threshold_uncertainty_score":0.0044655204},"labels":[],"label_agreement":null},{"id":"W2161808364","doi":"10.1111/2049-632x.12107","title":"Draft genomes of 12 host-adapted and environmental isolates of<i>Pseudomonas aeruginosa</i>and their positions in the core genome phylogeny","year":2013,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":58,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval","funders":"Biotechnology and Biological Sciences Research Council; Medical Research Council; Cystic Fibrosis Canada; University of Edinburgh; Society for General Microbiology; University of Strathclyde","keywords":"Biology; Genome; Comparative genomics; Pseudomonas aeruginosa; Indel; Genomics; Genetics; Phylogenetic tree; Host adaptation; Phylogenetics; Evolutionary biology; Computational biology; Gene; Single-nucleotide polymorphism; Genotype; Bacteria","score_opus":0.006879302353418756,"score_gpt":0.18793297120518487,"score_spread":0.1810536688517661,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2161808364","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.68012536,0.0024413324,0.018812034,0.00036711304,0.000112646885,0.00042448074,0.2937417,0.00076419656,0.0032111786],"genre_scores_gemma":[0.31820396,0.002109331,0.06960471,0.00020390993,0.000037511876,0.00056564994,0.60658747,0.00044022585,0.0022471705],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9994512,0.000091169226,0.000073413335,0.00014187842,0.0001474163,0.00009493571],"domain_scores_gemma":[0.9988275,0.00030569828,0.00025339797,0.00009252119,0.00033871742,0.00018206805],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007099085,0.00078281265,0.00085285795,0.0018455092,0.0006782027,0.0008683913,0.0006572226,0.0008741703,0.002661453],"category_scores_gemma":[0.0026143019,0.00041613472,0.0010117592,0.0033414438,0.00022614439,0.00048828934,0.00060898275,0.0010366203,0.0010811841],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0039044588,0.00029958956,0.035313144,0.0035704777,0.000381329,0.0014708197,0.0017324578,0.0050851167,0.8844425,0.001017864,0.005897649,0.056884598],"study_design_scores_gemma":[0.00047493257,0.0016906222,0.74923646,0.0007088761,0.0017232312,0.0038068327,0.0023052706,0.015102418,0.09564181,0.0019303405,0.12712905,0.0002502208],"about_ca_topic_score_codex":0.006293732,"about_ca_topic_score_gemma":0.008452582,"teacher_disagreement_score":0.006293732,"about_ca_system_score_codex":0.00056294404,"about_ca_system_score_gemma":0.0018997552,"threshold_uncertainty_score":0.012514234},"labels":[],"label_agreement":null},{"id":"W2208134708","doi":"10.1093/femspd/ftv098","title":"Defective mutations within the translocation domain of<i>Clostridium difficile</i>toxin B impair disease pathogenesis","year":2015,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Clostridium difficile and Clostridium perfringens research","field":"Medicine","cited_by":7,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Toronto; Hospital for Sick Children","funders":"National Institute of Diabetes and Digestive and Kidney Diseases; National Institute of Allergy and Infectious Diseases","keywords":"Chromosomal translocation; Pathogenesis; Virulence; Clostridium difficile toxin B; Toxin; Microbiology; Clostridium difficile; Mutant; Clostridium difficile toxin A; Biology; Genetics; Immunology; Gene","score_opus":0.0274873180351739,"score_gpt":0.2817660182276494,"score_spread":0.2542787001924755,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2208134708","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9974546,0.00030396497,0.00090274506,0.000046953042,0.000016199447,0.000015483041,0.00026240104,0.000057952184,0.00093976595],"genre_scores_gemma":[0.9974745,0.00023228982,0.0009183903,0.000051347975,0.00000443112,0.000011201709,0.00034909745,0.000035691246,0.0009231272],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9997751,0.000044779696,0.00003093344,0.00004119791,0.000050174753,0.000057790287],"domain_scores_gemma":[0.99971765,0.00006459169,0.00009308985,0.000023750692,0.0000144135065,0.00008651363],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00012728009,0.00039072975,0.00027976144,0.00024884692,0.00012033218,0.00027148004,0.00023048453,0.00043309052,0.0018368895],"category_scores_gemma":[0.00023024906,0.00017300273,0.00026656096,0.00014432838,0.0003629918,0.0001774361,0.00025960067,0.00052861363,0.00050508906],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00015544904,0.00005688706,0.00017688095,0.000018390085,0.0000050916137,0.000046591904,0.000012531767,0.00006718761,0.99877256,0.00006271773,0.000026319654,0.0005992306],"study_design_scores_gemma":[0.0000525618,0.000977312,0.007679174,0.000016897937,0.000025731704,0.000806645,0.000056543355,0.0008396745,0.98727244,0.00008038386,0.0021809419,0.00001168299],"about_ca_topic_score_codex":0.0007726748,"about_ca_topic_score_gemma":0.00067379896,"teacher_disagreement_score":0.0018368895,"about_ca_system_score_codex":0.00024096131,"about_ca_system_score_gemma":0.00017343892,"threshold_uncertainty_score":0.0061450005},"labels":[],"label_agreement":null},{"id":"W2326433963","doi":"10.1093/femspd/ftw029","title":"Lactobacilli require physical contact to reduce staphylococcal TSST-1 secretion and vaginal epithelial inflammatory response","year":2016,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Antimicrobial Resistance in Staphylococcus","field":"Medicine","cited_by":11,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Lawson Health Research Institute; Western University","funders":"","keywords":"Staphylococcus aureus; Microbiology; Biofilm; Secretion; Toxic shock syndrome; Lactobacillus; Probiotic; Biology; Virulence; Inflammation; Bacteria; Chemistry; Immunology; Biochemistry","score_opus":0.012193047172897667,"score_gpt":0.27222621619729137,"score_spread":0.2600331690243937,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2326433963","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9961831,0.0016686249,0.000476593,0.00017107859,0.00005155428,0.000031146545,0.00014700784,0.000018954821,0.0012519218],"genre_scores_gemma":[0.9941385,0.00069623755,0.001160257,0.00017272972,0.000017292658,0.000060544386,0.00036257482,0.0000145593785,0.0033773603],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9996433,0.000073011826,0.000030377802,0.000049410566,0.00010898771,0.000094844174],"domain_scores_gemma":[0.99985886,0.00001945066,0.00003822882,0.00001458768,0.000027101287,0.000041744595],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00014750671,0.0003374519,0.00044081025,0.0001075349,0.00016485703,0.00048723043,0.00021351161,0.0003432437,0.0030508908],"category_scores_gemma":[0.0002622486,0.00019451913,0.00028055368,0.0001246259,0.00014783636,0.0001982685,0.0005429514,0.00059431675,0.0003080228],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00058559614,0.00015709245,0.00040934334,0.00007308927,0.000011921009,0.000044262993,0.000027250453,0.000022593274,0.9965333,0.000040692838,0.00007172243,0.0020232345],"study_design_scores_gemma":[0.000055074983,0.0031016471,0.022146858,0.00003745065,0.000040941137,0.00022388934,0.00024177384,0.0005042696,0.9705127,0.000065281274,0.0030574477,0.0000126166815],"about_ca_topic_score_codex":0.0007764702,"about_ca_topic_score_gemma":0.0011869536,"teacher_disagreement_score":0.0030508908,"about_ca_system_score_codex":0.0002175326,"about_ca_system_score_gemma":0.00038446483,"threshold_uncertainty_score":0.010206282},"labels":[],"label_agreement":null},{"id":"W2404927434","doi":"10.1093/femspd/ftw048","title":"Host resistance to intranasal<i>Acinetobacter baumannii</i>reinfection in mice","year":2016,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Brock University; National Research Council Canada","funders":"","keywords":"Acinetobacter baumannii; Microbiology; Nasal administration; Biology; Host (biology); Bacteria; Chemistry; Virology; Genetics; Pseudomonas aeruginosa","score_opus":0.005336205517940655,"score_gpt":0.2220058425306035,"score_spread":0.21666963701266284,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2404927434","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99495333,0.0011197772,0.0011735046,0.0002779661,0.000058392852,0.00005863638,0.00067239447,0.00022384182,0.0014621642],"genre_scores_gemma":[0.99259937,0.00092693785,0.0015675363,0.000249647,0.000029406585,0.0001270611,0.00080441026,0.000063381834,0.0036322074],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9995043,0.000076128454,0.000039812618,0.00013503262,0.0000653005,0.00017941848],"domain_scores_gemma":[0.9996358,0.00003552982,0.00013875614,0.000065507455,0.0000243965,0.00010004939],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003601048,0.0008262163,0.00053846557,0.00063693314,0.0002779729,0.00060543773,0.00041644188,0.00095023104,0.001625305],"category_scores_gemma":[0.00017300768,0.00036820033,0.00056011544,0.00016706469,0.0005018957,0.00061223155,0.00027883612,0.0021563147,0.0007579991],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0009293113,0.00052541005,0.00051043177,0.000048629387,0.00001752833,0.00008284035,0.00005121823,0.00012720753,0.99551314,0.00012219598,0.00012344836,0.0019486077],"study_design_scores_gemma":[0.00021145557,0.012311407,0.014431552,0.00006202764,0.000082807026,0.0011575604,0.00020157381,0.0018685989,0.9656781,0.00026368123,0.003695672,0.00003557891],"about_ca_topic_score_codex":0.00049362803,"about_ca_topic_score_gemma":0.0006273435,"teacher_disagreement_score":0.001625305,"about_ca_system_score_codex":0.00036057716,"about_ca_system_score_gemma":0.00023180663,"threshold_uncertainty_score":0.0054371953},"labels":[],"label_agreement":null},{"id":"W2579497673","doi":"10.1093/femspd/ftx003","title":"Sequential Colonization of Periodontal Pathogens in Induction of Periodontal Disease and Atherosclerosis in LDLR <sup>null</sup> Mice","year":2017,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Oral microbiology and periodontitis research","field":"Dentistry","cited_by":33,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"National Institute of Dental and Craniofacial Research; National Institutes of Health","keywords":"Tannerella forsythia; Treponema denticola; Porphyromonas gingivalis; Fusobacterium nucleatum; Biology; Microbiology; Periodontitis; Dental plaque; Immune system; Periodontal pathogen; Immunology; Pathology; Bacteria; Medicine; Internal medicine","score_opus":0.026608134060301204,"score_gpt":0.2848467866160308,"score_spread":0.2582386525557296,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2579497673","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9964857,0.0005141699,0.0014337976,0.000121843506,0.000019916333,0.000042066484,0.00036650454,0.000089048975,0.0009269515],"genre_scores_gemma":[0.98834383,0.0006391181,0.004090073,0.00014213838,0.000020708905,0.00015911153,0.00055716117,0.00008760666,0.0059601227],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99944574,0.000115255534,0.00006365658,0.00011703739,0.00012880229,0.00012951856],"domain_scores_gemma":[0.9993622,0.000057184643,0.00026501133,0.00006814848,0.00003002286,0.00021747474],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004513244,0.0006738234,0.00035294364,0.0010456657,0.00032097538,0.000560831,0.00038001966,0.0009181481,0.0018293068],"category_scores_gemma":[0.00017311724,0.0006907903,0.00043919374,0.00024517468,0.0006439931,0.00042819703,0.00044027038,0.0014941215,0.00054697855],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0010500284,0.00024625452,0.000608086,0.000028269982,0.000005834425,0.00010510948,0.00004603381,0.00003499847,0.9966479,0.00018098907,0.00003351405,0.0010129573],"study_design_scores_gemma":[0.00020342752,0.0035019268,0.019195972,0.00003964513,0.00006242934,0.0011965492,0.00022952029,0.0009466815,0.97204125,0.0002521458,0.0023080362,0.000022284928],"about_ca_topic_score_codex":0.00038003523,"about_ca_topic_score_gemma":0.00086957915,"teacher_disagreement_score":0.0018293068,"about_ca_system_score_codex":0.0003612999,"about_ca_system_score_gemma":0.0002787699,"threshold_uncertainty_score":0.006119609},"labels":[],"label_agreement":null},{"id":"W2598545405","doi":"10.1093/femspd/ftx032","title":"Infection of porcine colon explants with “Brachyspira hampsonii” leads to increased epithelial necrosis and catarrhal exudate","year":2017,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Veterinary medicine and infectious diseases","field":"Veterinary","cited_by":7,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Saskatchewan","funders":"Alberta Livestock and Meat Agency","keywords":"Biology; Microbiology; Lamina propria; Explant culture; Mucus; Exudate; Inoculation; In vitro; In vivo; Epithelium; Immunology","score_opus":0.0402734181226176,"score_gpt":0.30814950836738003,"score_spread":0.26787609024476244,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2598545405","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99648005,0.0007336753,0.00095689617,0.00004977467,0.000037712183,0.000025593281,0.00024546936,0.000025395904,0.001445398],"genre_scores_gemma":[0.99493694,0.00046665227,0.0018338078,0.00006067223,0.000016119897,0.000028368055,0.00051227707,0.000010170823,0.0021349133],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9998086,0.000041977706,0.00001888705,0.000044797725,0.000041001153,0.00004484051],"domain_scores_gemma":[0.9998628,0.000040008028,0.000032415246,0.000021090329,0.000013776073,0.00002982931],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00016608802,0.00054769486,0.00025604377,0.00018475443,0.00020317285,0.0002642444,0.0001780148,0.00040026085,0.0013567499],"category_scores_gemma":[0.00015083785,0.00023158836,0.00046011596,0.0001076142,0.00021079158,0.00023206601,0.00030707105,0.0005343976,0.00044574906],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000081966326,0.000017402244,0.00047974184,0.000038674385,0.0000047702392,0.00010659567,0.00002551109,0.00002663563,0.99892163,0.000008525519,0.000015597872,0.00027305543],"study_design_scores_gemma":[0.000011316595,0.0025604588,0.05347075,0.000029028035,0.00004052436,0.0009507803,0.00041162875,0.00085921935,0.9398146,0.000038566377,0.0017992131,0.000013875966],"about_ca_topic_score_codex":0.0014679163,"about_ca_topic_score_gemma":0.001914131,"teacher_disagreement_score":0.0014679163,"about_ca_system_score_codex":0.0001844835,"about_ca_system_score_gemma":0.00018816775,"threshold_uncertainty_score":0.0045387745},"labels":[],"label_agreement":null},{"id":"W2602011001","doi":"10.1093/femspd/ftx035","title":"Chlamydia trachomatis ChxR is a transcriptional regulator of virulence factors that function in in vivo host–pathogen interactions","year":2017,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":20,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Manitoba; Public Health Agency of Canada","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health","keywords":"Biology; Chlamydia trachomatis; Virulence; Mutant; Gene; Transcriptional regulation; Genetics; Pathogen; Phenotype; Cell biology; Reverse genetics; Obligate; Microbiology; Gene expression; Virology","score_opus":0.03460208474295573,"score_gpt":0.29073829397358225,"score_spread":0.2561362092306265,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2602011001","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99098957,0.0018881682,0.0047126184,0.000110640285,0.000031629606,0.000029292667,0.0011575895,0.00014388288,0.0009364339],"genre_scores_gemma":[0.993072,0.0005751801,0.003560319,0.000042463125,0.000008450138,0.000016625294,0.0009567389,0.000019677142,0.0017486075],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.999826,0.000015935922,0.000015075833,0.000035967034,0.00006715509,0.00004002632],"domain_scores_gemma":[0.9998323,0.000022316759,0.000059098827,0.00002305017,0.00002719312,0.00003599337],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00014180456,0.00044654115,0.0002830901,0.00025754631,0.00029922414,0.0002813047,0.00015603426,0.00025464562,0.0007179942],"category_scores_gemma":[0.00016195158,0.0001404402,0.0002519207,0.00018118731,0.00022554812,0.00011882479,0.0002755283,0.00040705144,0.00017910462],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000018360102,0.0000058019427,0.0005402258,0.000017937084,0.0000015894838,0.000029304963,0.0000065031745,0.000015543457,0.99887735,0.000022200158,0.000018801935,0.00044642758],"study_design_scores_gemma":[0.0000074175045,0.00019663882,0.07599547,0.0000132979985,0.000030806368,0.0010777364,0.000054824563,0.000987056,0.91850674,0.000040146024,0.003078625,0.000011187255],"about_ca_topic_score_codex":0.0030811909,"about_ca_topic_score_gemma":0.0030947824,"teacher_disagreement_score":0.0030811909,"about_ca_system_score_codex":0.0004619393,"about_ca_system_score_gemma":0.00040824467,"threshold_uncertainty_score":0.006126523},"labels":[],"label_agreement":null},{"id":"W2740415149","doi":"10.1093/femspd/ftx089","title":"Perspective: my 37 year journey through Chlamydia  research: Chlamydia  antigen analysis using monoclonal antibodies and major histocompatibility complex molecules","year":2017,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":3,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia; BC Centre for Disease Control","funders":"","keywords":"Chlamydia; Chlamydia trachomatis; Antigen; Major histocompatibility complex; Immunology; Biology; Monoclonal antibody; Antibody; Virology","score_opus":0.1617926763503544,"score_gpt":0.4227010956240283,"score_spread":0.2609084192736739,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2740415149","genre_codex":"commentary","genre_gemma":"commentary","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"commentary","genre_consensus":"commentary","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.0017206565,0.102793045,0.0008518817,0.8254754,0.06343539,0.000017240209,0.000090879206,0.000031525244,0.005584079],"genre_scores_gemma":[0.031390928,0.16819432,0.0022163196,0.6859127,0.080396794,0.00006332146,0.00013922414,0.00008815594,0.031598233],"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","domain_scores_codex":[0.9964663,0.0015765895,0.0001689797,0.00040478507,0.0007328023,0.0006504527],"domain_scores_gemma":[0.9899442,0.0027512638,0.00097440765,0.00022245635,0.0025322551,0.003575366],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0072565675,0.00090394233,0.0006966086,0.00090109254,0.0045768223,0.007076924,0.0012560568,0.0071063163,0.007140355],"category_scores_gemma":[0.01097351,0.0003242652,0.00072262046,0.0008942799,0.006094162,0.008485476,0.00552981,0.016151926,0.0039731115],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008329442,0.00007696073,0.0020548399,0.0011385108,0.000022696195,0.0010589454,0.012666941,0.000070230155,0.0011667736,0.018465556,0.91637516,0.046820074],"study_design_scores_gemma":[0.0000050522817,0.00008882735,0.0006162262,0.0007579001,0.000008658669,0.002090495,0.009224751,0.000016815582,0.00021027288,0.003612124,0.9833475,0.000021412658],"about_ca_topic_score_codex":0.002588341,"about_ca_topic_score_gemma":0.00455969,"teacher_disagreement_score":0.0072565675,"about_ca_system_score_codex":0.0029437027,"about_ca_system_score_gemma":0.0065356265,"threshold_uncertainty_score":0.038376868},"labels":[],"label_agreement":null},{"id":"W2765531693","doi":"10.1093/femspd/ftx116","title":"In vitro attenuation of a virulent swine isolate of Brachyspira hampsonii","year":2017,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Veterinary medicine and infectious diseases","field":"Veterinary","cited_by":0,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Shared Health; University of Saskatchewan","funders":"","keywords":"Virulence; Biology; Microbiology; Feces; Genome; Strain (injury); Attenuated vaccine; In vitro; Serial passage; Virology; Gene; Genetics","score_opus":0.048380659326199886,"score_gpt":0.33204060994442464,"score_spread":0.28365995061822474,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2765531693","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9980568,0.00019457523,0.0007306351,0.00003324225,0.000018058437,0.00003782189,0.00021787464,0.000012552499,0.00069837837],"genre_scores_gemma":[0.9956993,0.00023785561,0.0022660235,0.000040103776,0.000011720241,0.00004087993,0.0007306029,0.00001075314,0.0009627854],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99986553,0.000036350226,0.000014395059,0.000022000268,0.000034722427,0.000026959175],"domain_scores_gemma":[0.9998363,0.00005981498,0.00003086903,0.00002509359,0.000020679314,0.000027234446],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00022563395,0.00042967987,0.0002245405,0.00013579127,0.00015530146,0.00018397656,0.00023880794,0.0002427475,0.0004362822],"category_scores_gemma":[0.00026961716,0.00013139565,0.00022508025,0.00012572546,0.00014442694,0.00011432279,0.00026071013,0.0004953841,0.00020794338],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000067814195,0.000038088852,0.00087577966,0.000022411768,0.0000046611062,0.00006982547,0.000023540006,0.00007018934,0.9983151,0.000017931194,0.000024860688,0.0004698347],"study_design_scores_gemma":[0.000042870877,0.003956257,0.047092684,0.000018525925,0.00005179986,0.00070600177,0.00016717867,0.0020646076,0.94414455,0.000052787127,0.0016919741,0.000010801461],"about_ca_topic_score_codex":0.0028426705,"about_ca_topic_score_gemma":0.004321174,"teacher_disagreement_score":0.0028426705,"about_ca_system_score_codex":0.00024353265,"about_ca_system_score_gemma":0.00024058025,"threshold_uncertainty_score":0.005652249},"labels":[],"label_agreement":null},{"id":"W2795759004","doi":"10.1093/femspd/fty030","title":"Green tea polyphenols enhance gingival keratinocyte integrity and protect against invasion by Porphyromonas gingivalis","year":2018,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Oral microbiology and periodontitis research","field":"Dentistry","cited_by":58,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université Laval","funders":"","keywords":"Porphyromonas gingivalis; Occludin; Tight junction; Keratinocyte; Chemistry; Barrier function; Junctional epithelium; Catechin; Epithelium; Periodontitis; Cell biology; Microbiology; Biology; Biochemistry; Polyphenol; Medicine; In vitro; Dentistry","score_opus":0.019809737979237983,"score_gpt":0.28967912775682697,"score_spread":0.269869389777589,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2795759004","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9974136,0.0017177934,0.00033862834,0.000063815576,0.000011956724,0.000011883175,0.0000430066,0.00001939175,0.00037983936],"genre_scores_gemma":[0.9970085,0.0012427386,0.0005649781,0.000040904455,0.0000075360945,0.000009335506,0.00005839317,0.000007083274,0.0010606298],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9999236,0.000015105485,0.0000051115308,0.0000096714375,0.000013869691,0.000032633234],"domain_scores_gemma":[0.9999485,0.000008715671,0.000012175882,0.000007783919,0.000009399644,0.000013416315],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000108380904,0.00029851063,0.00024373266,0.000261145,0.00020295694,0.00024221183,0.00010360268,0.00025980122,0.00085928],"category_scores_gemma":[0.00011408942,0.00010939555,0.00026817355,0.00011550402,0.00014213148,0.00024357422,0.00018929748,0.00031807597,0.00012791582],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0004148127,0.000096383024,0.00017996677,0.00006828788,0.000008478718,0.000027112857,0.00003735257,0.000034707686,0.9963043,0.000030264842,0.000022114418,0.0027762852],"study_design_scores_gemma":[0.000055491695,0.0030883101,0.02493467,0.000021992677,0.000111751746,0.00016049415,0.00014883836,0.00043101233,0.9680445,0.00012526588,0.0028688635,0.000008872982],"about_ca_topic_score_codex":0.00092638127,"about_ca_topic_score_gemma":0.0016534769,"teacher_disagreement_score":0.00092638127,"about_ca_system_score_codex":0.00013620403,"about_ca_system_score_gemma":0.00021270353,"threshold_uncertainty_score":0.0028746128},"labels":[],"label_agreement":null},{"id":"W2801230720","doi":"10.1093/femspd/fty040","title":"Genomic insights into the evolution and ecology of botulinum neurotoxins","year":2018,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Botulinum Toxin and Related Neurological Disorders","field":"Medicine","cited_by":37,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Waterloo","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Ontario","keywords":"Biology; Evolutionary biology; Ecology; Botulinum neurotoxin; Botulism; Genetics; Toxin","score_opus":0.009171789741532115,"score_gpt":0.23198095483198924,"score_spread":0.22280916509045712,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2801230720","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.98438895,0.004156237,0.0041270866,0.0006286107,0.00003436521,0.00001600452,0.001457288,0.00010093603,0.0050905743],"genre_scores_gemma":[0.98760116,0.0042714723,0.004397762,0.00036763318,0.00006821744,0.000012211368,0.0018488738,0.000036419053,0.0013963941],"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","domain_scores_codex":[0.9998858,0.000014597662,0.0000074143054,0.000040573937,0.000018102852,0.000033542987],"domain_scores_gemma":[0.99977165,0.00007216745,0.000065777866,0.000017432605,0.000029326475,0.000043703112],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00017690295,0.00033930226,0.0002793627,0.0012527584,0.00035959453,0.0005596123,0.00029172917,0.0008226309,0.0010527315],"category_scores_gemma":[0.00046318557,0.00022189064,0.00030825488,0.0014884943,0.00024964707,0.00061816466,0.00046856314,0.0006818521,0.0003697713],"study_design_candidate":"observational","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00048474254,0.00009776686,0.052990977,0.00043090916,0.00008098991,0.0032308667,0.0014370538,0.0033558616,0.8614873,0.008863891,0.00041543407,0.06712415],"study_design_scores_gemma":[0.00005650406,0.00038508305,0.87717676,0.00024320769,0.0003345621,0.0041683475,0.002819805,0.0059158,0.04840428,0.01333978,0.04705947,0.00009638228],"about_ca_topic_score_codex":0.0022110497,"about_ca_topic_score_gemma":0.0023809185,"teacher_disagreement_score":0.0022110497,"about_ca_system_score_codex":0.0005441251,"about_ca_system_score_gemma":0.0003815581,"threshold_uncertainty_score":0.0043963194},"labels":[],"label_agreement":null},{"id":"W2823435674","doi":"10.1093/femspd/fty060","title":"Spatiotemporal immunofluorescent evaluation of porcine reproductive and respiratory syndrome virus transmission across the maternal-fetal interface","year":2018,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Animal Virus Infections Studies","field":"Agricultural and Biological Sciences","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Saskatchewan","funders":"Genome Prairie; Genome Alberta; Genome Canada","keywords":"Porcine reproductive and respiratory syndrome virus; Biology; Fetus; Virology; Transmission (telecommunications); Porcine circovirus; Virus; Immunology; Andrology; Pregnancy; Medicine; Genetics","score_opus":0.037333710672582066,"score_gpt":0.2944438572626504,"score_spread":0.2571101465900683,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2823435674","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99422836,0.0008092092,0.0038438737,0.000020426234,0.000006476143,0.000012425417,0.00011943477,0.000023823182,0.0009357883],"genre_scores_gemma":[0.9937855,0.0006410565,0.0044395453,0.00002651033,0.0000057231223,0.000023457706,0.00020543986,0.000008028887,0.00086475717],"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","domain_scores_codex":[0.9999126,0.000016473221,0.000006209139,0.000026615588,0.000018100678,0.000019908148],"domain_scores_gemma":[0.9999341,0.000019628278,0.000017908586,0.0000066770576,0.000009851202,0.0000117798245],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00014412348,0.00016868653,0.00009446748,0.0002321612,0.000118006596,0.00017429171,0.000118183285,0.00020574927,0.000510932],"category_scores_gemma":[0.00009352294,0.00012610186,0.000114798204,0.00011210499,0.00018826211,0.00016505316,0.00014629214,0.00031487443,0.00011360361],"study_design_candidate":"observational","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00003792913,0.000010324174,0.001534343,0.000014888361,0.000001918846,0.00004974989,0.000029816349,0.000017109145,0.9976172,0.00003053239,0.0000053186523,0.0006509435],"study_design_scores_gemma":[0.000010776015,0.00069713674,0.14328788,0.000013603543,0.00002974661,0.001327765,0.00032857846,0.0015825299,0.851464,0.00007986718,0.0011700356,0.000008149273],"about_ca_topic_score_codex":0.0010956132,"about_ca_topic_score_gemma":0.0013308864,"teacher_disagreement_score":0.0010956132,"about_ca_system_score_codex":0.00021947763,"about_ca_system_score_gemma":0.00010425846,"threshold_uncertainty_score":0.0021784306},"labels":[],"label_agreement":null},{"id":"W2899223531","doi":"10.1093/femspd/fty079","title":"Effects of <i>Actinobacillus pleuropneumoniae</i> on barrier function and inflammatory response of pig tracheal epithelial cells","year":2018,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Microbial infections and disease research","field":"Immunology and Microbiology","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Université de Montréal; Fonds de Recherche du Québec - Santé; Université Laval","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Actinobacillus pleuropneumoniae; Barrier function; Microbiology; Occludin; Biology; Tight junction; Pathogen; Secretion; Epithelium; Respiratory epithelium; Immunology; Cell biology","score_opus":0.00672945211676462,"score_gpt":0.22354561224115688,"score_spread":0.21681616012439225,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2899223531","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9938782,0.003622041,0.00045968153,0.00018122584,0.00007585465,0.00003598853,0.00022425599,0.00002696563,0.0014957758],"genre_scores_gemma":[0.9957313,0.0015127087,0.00081058935,0.00021328636,0.000033529206,0.0000486278,0.0005309669,0.0000064001197,0.0011126626],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.999734,0.000078664816,0.00003171893,0.00003803837,0.00004420716,0.00007332577],"domain_scores_gemma":[0.9999057,0.000024377825,0.000021076234,0.000010866128,0.000018510244,0.000019489227],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00026985374,0.00036672517,0.00042072078,0.00011206695,0.00015921266,0.00032800055,0.00016665818,0.00044998495,0.0009118527],"category_scores_gemma":[0.00014984397,0.00011396068,0.00049171434,0.00012616537,0.00019557006,0.00026000716,0.00018293575,0.0005692095,0.00027390363],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000568695,0.00013696979,0.00036307453,0.00013261987,0.0000133574085,0.00009832162,0.000039342398,0.00006952069,0.99715436,0.000030273713,0.00007425515,0.0013192415],"study_design_scores_gemma":[0.00005168918,0.0055545303,0.019767748,0.00004083795,0.000056925164,0.00025974042,0.00019803985,0.0010732461,0.96964943,0.000041892323,0.0032902036,0.000015745947],"about_ca_topic_score_codex":0.0009476421,"about_ca_topic_score_gemma":0.0008844593,"teacher_disagreement_score":0.0009476421,"about_ca_system_score_codex":0.00019632299,"about_ca_system_score_gemma":0.00020661486,"threshold_uncertainty_score":0.003050506},"labels":[],"label_agreement":null},{"id":"W2988061982","doi":"10.1093/femspd/ftz054","title":"Mapping of <i>Shigella flexneri</i>’s tissue distribution and type III secretion apparatus activity during infection of the large intestine of guinea pigs","year":2019,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Escherichia coli research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":8,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Ottawa","funders":"European Research Council; Canadian Institutes of Health Research; Agence Nationale de la Recherche; Howard Hughes Medical Institute","keywords":"Shigella flexneri; Secretion; Lamina propria; Microbiology; Biology; Mucus; Shigella; Bacteria; Vacuole; Intracellular; Extracellular; Intestinal mucosa; Intracellular parasite; Cell biology; Epithelium; Cytoplasm; Escherichia coli; Biochemistry; Salmonella; Medicine","score_opus":0.008308090238354016,"score_gpt":0.251702131269466,"score_spread":0.24339404103111198,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W2988061982","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9954021,0.00064355036,0.0026256691,0.000041469997,0.00000865592,0.000022169615,0.0003244321,0.000038163456,0.00089376414],"genre_scores_gemma":[0.9943071,0.00061532686,0.003167424,0.00004889655,0.0000060605116,0.00004791647,0.00038694724,0.000020021016,0.0014003466],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9999329,0.000009875562,0.0000030341528,0.000021869373,0.000008850961,0.000023508326],"domain_scores_gemma":[0.9999056,0.000019352961,0.000031720563,0.000008102296,0.000011115295,0.000024185692],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00011819693,0.00026562889,0.00013595776,0.00021890707,0.00009679098,0.00019248667,0.00010731978,0.00032487878,0.00049957907],"category_scores_gemma":[0.00007937415,0.00015596286,0.00022401875,0.00012064112,0.00023419519,0.00015026449,0.00014564216,0.0003320739,0.00029516165],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00004998912,0.0000053908093,0.00027165853,0.0000102243885,9.183636e-7,0.000021394268,0.0000123179325,0.000011300466,0.9994056,0.000009464612,0.0000043442833,0.00019724564],"study_design_scores_gemma":[0.000010690071,0.0009878504,0.09955262,0.000016531181,0.000022705006,0.00059160474,0.0002408623,0.0007993188,0.89645183,0.000055107565,0.0012574719,0.000013430914],"about_ca_topic_score_codex":0.0007687071,"about_ca_topic_score_gemma":0.0007482119,"teacher_disagreement_score":0.0007687071,"about_ca_system_score_codex":0.00015828312,"about_ca_system_score_gemma":0.00011937253,"threshold_uncertainty_score":0.0016712546},"labels":[],"label_agreement":null},{"id":"W3028778593","doi":"10.1093/femspd/ftaa022","title":"Reproductive system infections in women: lower genital tract syndromes","year":2020,"lang":"en","type":"review","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":13,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"","keywords":"Vagina; Female reproductive system; Uterus; Etiology; Medicine; Sex organ; Cervix; Vulva; Gynecology; Pregnancy; Vaginitis; Obstetrics; Reproductive system; Amniotic fluid; Physiology; Fetus; Biology; Pathology; Internal medicine; Surgery","score_opus":0.03228684261522602,"score_gpt":0.31092600889009414,"score_spread":0.2786391662748681,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3028778593","genre_codex":"review","genre_gemma":"review","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"review","genre_consensus":"review","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.00009469222,0.9978296,0.000078272664,0.00029035183,0.0003321993,0.0000054529455,0.000019074261,0.00000728625,0.0013430426],"genre_scores_gemma":[0.00072606886,0.99786085,0.00013824913,0.0002622812,0.0002973297,0.0000057823468,0.00003636158,0.0000012389663,0.0006718684],"study_design_codex":"design_other","study_design_gemma":"not_applicable","domain_scores_codex":[0.9998022,0.000044255987,0.000030396655,0.000027554483,0.000070664304,0.000024985158],"domain_scores_gemma":[0.9997446,0.00011543159,0.00004858922,0.000007928834,0.00005754929,0.000025810907],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00035824877,0.0007960056,0.0010330944,0.0022400122,0.00031109952,0.0009086849,0.000592379,0.00084871415,0.00476694],"category_scores_gemma":[0.0008312406,0.0001435655,0.00043649104,0.0017582638,0.00041004154,0.0009846668,0.0006297757,0.0011991218,0.0021960658],"study_design_candidate":"not_applicable","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000055941942,0.00004381162,0.00047325215,0.018700523,0.00007305813,0.00040812604,0.00014294569,0.00015094747,0.0010803334,0.003474331,0.056036443,0.91936034],"study_design_scores_gemma":[0.000009048164,0.00006813437,0.0016976024,0.007539379,0.00010042372,0.004828644,0.00014009161,0.0000434215,0.00024329084,0.0014078283,0.98390687,0.00001535273],"about_ca_topic_score_codex":0.0011524903,"about_ca_topic_score_gemma":0.0017810956,"teacher_disagreement_score":0.00476694,"about_ca_system_score_codex":0.0004429849,"about_ca_system_score_gemma":0.0010651656,"threshold_uncertainty_score":0.015946984},"labels":[],"label_agreement":null},{"id":"W3030954715","doi":"10.1093/femspd/ftaa023","title":"Reproductive system infections in women: upper genital tract, fetal, neonatal and infant syndromes","year":2020,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":16,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of British Columbia","funders":"","keywords":"Vagina; Sex organ; Fetus; Cervix; Treponema; Biology; Immunology; Medicine; Pregnancy; Obstetrics; Syphilis; Human immunodeficiency virus (HIV); Internal medicine; Anatomy","score_opus":0.015128716380876546,"score_gpt":0.24959085918579507,"score_spread":0.23446214280491853,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3030954715","genre_codex":"review","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":null,"domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.06449611,0.9037876,0.001401572,0.0035063685,0.00080425816,0.00006641378,0.00030123402,0.00006443481,0.025571955],"genre_scores_gemma":[0.31182083,0.6767935,0.002119013,0.0017150099,0.0011528827,0.00006684582,0.00031577284,0.000010044019,0.006006107],"study_design_codex":"design_other","study_design_gemma":"observational","domain_scores_codex":[0.9998591,0.000038422877,0.000020088026,0.000014875571,0.000033340024,0.0000340822],"domain_scores_gemma":[0.9999039,0.000028062615,0.000038243415,0.0000023883656,0.000013464191,0.000013834187],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00018586972,0.00030976,0.00034120283,0.0006789617,0.00027822773,0.00040375837,0.0001926712,0.00041726488,0.0024435078],"category_scores_gemma":[0.0005561392,0.000076238306,0.00017964646,0.0007100442,0.00033489038,0.00030650248,0.00041802868,0.0004503263,0.00034111695],"study_design_candidate":"observational","study_design_consensus":null,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00025765883,0.0001041492,0.10366606,0.0075181914,0.00014752205,0.06334191,0.0042114533,0.000367809,0.015747156,0.013749454,0.036571912,0.75431675],"study_design_scores_gemma":[0.000031193566,0.00040743078,0.16482785,0.005820852,0.00021562677,0.38631433,0.0030558752,0.00025085956,0.0027788035,0.0039000735,0.4323321,0.000064974665],"about_ca_topic_score_codex":0.0012954329,"about_ca_topic_score_gemma":0.0014386771,"teacher_disagreement_score":0.0024435078,"about_ca_system_score_codex":0.00025348508,"about_ca_system_score_gemma":0.00040717292,"threshold_uncertainty_score":0.008174419},"labels":[],"label_agreement":null},{"id":"W3084981380","doi":"10.1093/femspd/ftaa053","title":"Cruzioseptins, antibacterial peptides from <i>Cruziohyla calcarifer</i> skin, as promising leishmanicidal agents","year":2020,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Research on Leishmaniasis Studies","field":"Medicine","cited_by":14,"is_retracted":false,"has_abstract":true,"route_ca_aff":false,"route_ca_fund":true,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"","funders":"Universidade Estadual de Campinas; Queen's University; Coordenação de Aperfeiçoamento de Pessoal de Nível Superior; Queen's University Belfast; United Nations Development Programme; United Nations","keywords":"Amastigote; EC50; Antimicrobial peptides; Leishmania; Biology; Antimicrobial; In vivo; In vitro; Microbiology; Leishmania braziliensis; Biofilm; Leishmaniasis; Cutaneous leishmaniasis; Pharmacology; Biochemistry; Chemistry; Parasite hosting; Bacteria; Immunology; Biotechnology","score_opus":0.03486484286314988,"score_gpt":0.2932108176531877,"score_spread":0.2583459747900378,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3084981380","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9618412,0.029811626,0.004002555,0.00012923017,0.000043384345,0.00009818261,0.00021373919,0.000035881167,0.0038241355],"genre_scores_gemma":[0.9863614,0.00792404,0.004381209,0.000102051825,0.00002464295,0.000025595573,0.00024334177,0.0000058319456,0.0009318823],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99995124,0.000008673531,0.0000034671812,0.000008818996,0.000016597045,0.000011247518],"domain_scores_gemma":[0.9999232,0.00001553408,0.000024234627,0.0000036975125,0.000014037059,0.00001927938],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000104886385,0.00032373203,0.00015380257,0.00020557611,0.00011637554,0.00019473402,0.00012839668,0.00021432932,0.0007289265],"category_scores_gemma":[0.00010122111,0.00006579791,0.00016879545,0.00012759627,0.00020402604,0.00018585182,0.00012305277,0.00032902532,0.00014529302],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000094955445,0.000026264248,0.00036958873,0.00025757885,0.0000069958787,0.00015882462,0.000018542987,0.00012007602,0.9907574,0.000105688574,0.000023721184,0.008060389],"study_design_scores_gemma":[0.000041583986,0.0019154483,0.0054187463,0.000039812578,0.000046290505,0.001286416,0.000069556714,0.00025966534,0.98295975,0.000106589505,0.0078432225,0.000012901126],"about_ca_topic_score_codex":0.00028380164,"about_ca_topic_score_gemma":0.0007516014,"teacher_disagreement_score":0.0007289265,"about_ca_system_score_codex":0.00012932341,"about_ca_system_score_gemma":0.00014767461,"threshold_uncertainty_score":0.0024385452},"labels":[],"label_agreement":null},{"id":"W3105314400","doi":"10.1093/femspd/ftaa068","title":"Evaluation of the effect of T regulatory cell depletion and donor BCG vaccination on <i>Mycobacterium tuberculosis</i> H37Ra infection using an <i>in vitro</i> model of human PBMC infection","year":2020,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":2,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Canadian Blood Services; University of Alberta","funders":"","keywords":"Peripheral blood mononuclear cell; Immunology; Immune system; Mycobacterium tuberculosis; Vaccination; Medicine; Tuberculosis; Cytokine; Regulatory T cell; In vitro; T cell; Biology; IL-2 receptor; Pathology","score_opus":0.04015269194933866,"score_gpt":0.31707485125729756,"score_spread":0.2769221593079589,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W3105314400","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.99666876,0.0016595286,0.0007262863,0.000039862727,0.000059243175,0.00003620727,0.00013054142,0.000019958976,0.00065951585],"genre_scores_gemma":[0.9965119,0.0010737486,0.0012033891,0.00007019404,0.000037858175,0.00004529976,0.00034432134,0.000008882277,0.0007043776],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9997862,0.00007159745,0.000020344978,0.00003606304,0.00003973348,0.00004609323],"domain_scores_gemma":[0.99982977,0.000063210435,0.00002897851,0.000022449818,0.000021094862,0.000034466695],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00023467177,0.00024553822,0.00038821966,0.00008172777,0.00010264645,0.0002483267,0.00016733668,0.00021771189,0.0008383037],"category_scores_gemma":[0.00019412371,0.00010201773,0.00021792912,0.00006254405,0.00012517747,0.00011940225,0.00010745382,0.00052882254,0.00022213555],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.0007694694,0.00027644276,0.00047599597,0.0000761473,0.000009751939,0.000039418253,0.000019117439,0.00012424761,0.99559385,0.000014663413,0.000032623542,0.0025682552],"study_design_scores_gemma":[0.000053405874,0.008116175,0.007018497,0.000014518792,0.00006471548,0.00024157477,0.000035417554,0.00062300306,0.9825769,0.000015917394,0.0012336668,0.0000062246495],"about_ca_topic_score_codex":0.0003384163,"about_ca_topic_score_gemma":0.0005415889,"teacher_disagreement_score":0.0008383037,"about_ca_system_score_codex":0.000095301526,"about_ca_system_score_gemma":0.00015608263,"threshold_uncertainty_score":0.0028043985},"labels":[],"label_agreement":null},{"id":"W4360820048","doi":"10.1093/femspd/ftad003","title":"The<i>Burkholderia contaminans</i>prevalent phenotypes as possible markers of poor clinical outcomes in chronic lung infection of children with cystic fibrosis","year":2023,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Cystic Fibrosis Research Advances","field":"Medicine","cited_by":3,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Manitoba","funders":"Fondo para la Investigación Científica y Tecnológica; Facultad de Ciencias Exactas, Universidad Nacional de La Plata; Universidad Nacional de La Plata; Ministerio de Ciencia, Tecnología e Innovación Productiva; Universidad de Córdoba; Consejo Nacional de Investigaciones Científicas y Técnicas","keywords":"Burkholderia cepacia complex; Biology; Chronic infection; Burkholderia; Phenotype; Microbiology; Pseudomonas aeruginosa; Population; Genotype; Immunology; Cystic fibrosis; Medicine; Genetics; Bacteria; Gene","score_opus":0.012792474246462106,"score_gpt":0.3213810791396264,"score_spread":0.30858860489316425,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4360820048","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9995542,0.00016660322,0.000051876854,0.000015148657,0.0000012696486,0.000003800185,0.000058472582,0.0000016050383,0.00014687324],"genre_scores_gemma":[0.9997745,0.000045345256,0.00007024276,0.0000075707144,0.0000032293829,0.000002983474,0.00006685553,8.5363746e-7,0.000028517896],"study_design_codex":"observational","study_design_gemma":"observational","domain_scores_codex":[0.9996094,0.00011645328,0.000039276736,0.00006281573,0.000060089307,0.00011200122],"domain_scores_gemma":[0.99876887,0.00021655422,0.0006443279,0.00006224295,0.00009921253,0.00020881183],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005031464,0.00031527426,0.0002364005,0.0006482623,0.00033395307,0.00053180865,0.00017647889,0.000399129,0.00064979016],"category_scores_gemma":[0.0015316308,0.00013726522,0.00020815642,0.000512475,0.00043207718,0.00036553567,0.00050093594,0.0004459817,0.00013920879],"study_design_candidate":"observational","study_design_consensus":"observational","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00008398304,0.000014747995,0.9980142,0.0000068926956,0.0000055068886,0.00015725434,0.00006357045,0.000016177897,0.0008260459,0.000006820493,0.000013198237,0.00079169567],"study_design_scores_gemma":[0.0000018509437,0.00010996389,0.9983638,0.0000052691476,0.000011938488,0.0007523137,0.00023891713,0.00007224845,0.00033277264,0.000012806564,0.000096101096,0.0000021591816],"about_ca_topic_score_codex":0.002133379,"about_ca_topic_score_gemma":0.0021981627,"teacher_disagreement_score":0.002133379,"about_ca_system_score_codex":0.00019842925,"about_ca_system_score_gemma":0.00024660924,"threshold_uncertainty_score":0.0042418838},"labels":[],"label_agreement":null},{"id":"W4362521580","doi":"10.1093/femspd/ftad005","title":"Comparative study of GBP recruitment on two cytosol-dwelling pathogens, <i>Francisella novicida</i> and <i>Shigella flexneri</i> highlights differences in GBP repertoire and in GBP1 motif requirements","year":2023,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Immune Response and Inflammation","field":"Immunology and Microbiology","cited_by":8,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"Dalhousie University","funders":"Fondation pour la Recherche Médicale; Agence Nationale de la Recherche; Stanford University","keywords":"Francisella; Shigella flexneri; Biology; Shigella; Francisella tularensis; Microbiology; Genetics; Bacteria; Salmonella; Virulence; Escherichia coli; Gene","score_opus":0.06570622270103298,"score_gpt":0.302130722094756,"score_spread":0.236424499393723,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4362521580","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.998836,0.00030399635,0.0003692964,0.000015285685,0.0000026653431,0.0000039300785,0.00010560932,0.000008145713,0.000355221],"genre_scores_gemma":[0.9976947,0.0003300917,0.00074682897,0.00003251512,0.0000033594308,0.000015970129,0.00041288798,0.000007904339,0.0007557574],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.99992025,0.000010769886,0.0000043749915,0.00001667446,0.000016427455,0.00003149612],"domain_scores_gemma":[0.99994314,0.000012491023,0.00001114706,0.0000039221172,0.000013274957,0.000016024189],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00006583513,0.00023443693,0.00018479496,0.0001540349,0.00011227177,0.00011697321,0.00009460225,0.00020181669,0.00064196804],"category_scores_gemma":[0.000113119546,0.000092185146,0.00017926318,0.00009598812,0.000107890286,0.00015722174,0.00019590133,0.00016415854,0.00018529923],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.00009682383,0.000004212667,0.0007252621,0.000026237232,0.0000027816457,0.000026594982,0.00001766917,0.00002607952,0.9983689,0.000012461216,0.000013539648,0.00067938876],"study_design_scores_gemma":[0.000007959836,0.00037508778,0.10439985,0.000013696346,0.000024722527,0.00060593185,0.00020211189,0.0015022045,0.8911522,0.000048398724,0.001656969,0.00001087997],"about_ca_topic_score_codex":0.000820776,"about_ca_topic_score_gemma":0.0006602845,"teacher_disagreement_score":0.000820776,"about_ca_system_score_codex":0.00011021277,"about_ca_system_score_gemma":0.00007826604,"threshold_uncertainty_score":0.002147615},"labels":[],"label_agreement":null},{"id":"W4387431855","doi":"10.1093/femspd/ftad026","title":"TargeTron inactivation of plasmid-regulated <i>Chlamydia trachomatis</i> CT084 results in a nonlytic phenotype","year":2023,"lang":"en","type":"article","venue":"Pathogens and Disease","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":1,"is_retracted":false,"has_abstract":true,"route_ca_aff":true,"route_ca_fund":false,"route_ca_venue":false,"route_about_ca":false,"ca_institutions":"University of Manitoba","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health; National Natural Science Foundation of China","keywords":"Lytic cycle; Chlamydiae; Chlamydia trachomatis; Biology; Microbiology; Virulence; Plasmid; Phenotype; Gene; Chlamydia; Virology; Genetics; Virus","score_opus":0.01582149754048499,"score_gpt":0.2640026286786289,"score_spread":0.2481811311381439,"validation_status":"score_only:v0-immature-baseline","prediction":{"id":"W4387431855","genre_codex":"empirical","genre_gemma":"empirical","domain_codex":null,"domain_gemma":null,"model_version":"metacan-v3-hybrid-931329e0061c","genre_candidate":"empirical","genre_consensus":"empirical","domain_candidate":null,"domain_consensus":null,"prediction_status":"machine_predicted_unvalidated","genre_scores_codex":[0.9940826,0.00038215853,0.0026093477,0.00011125139,0.000055697597,0.00004010317,0.0010861711,0.00023497023,0.0013976878],"genre_scores_gemma":[0.98755825,0.00022823109,0.003305157,0.000081637765,0.0000080112095,0.00006992284,0.0017712215,0.00013571559,0.006841897],"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","domain_scores_codex":[0.9996847,0.000042768675,0.000034196182,0.000055914767,0.000112355534,0.00007011177],"domain_scores_gemma":[0.9996978,0.000065769054,0.00010014648,0.00004716782,0.000023140517,0.000066037166],"candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00011766558,0.00051722635,0.0002826839,0.00028649985,0.00017207615,0.00024421766,0.00045625152,0.000548605,0.0026907441],"category_scores_gemma":[0.00017812382,0.00018427132,0.00042401243,0.00021303151,0.000342789,0.00017434191,0.00036796698,0.0009541866,0.00066788966],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_system_candidate":false,"about_ca_system_consensus":false,"study_design_scores_codex":[0.000054022483,0.000024450927,0.000074796364,0.000015147794,0.0000021891253,0.000039575403,0.0000068785057,0.000024560672,0.9993505,0.00005383764,0.00003190067,0.00032231805],"study_design_scores_gemma":[0.000013835064,0.00023399656,0.0035604432,0.0000064048354,0.0000080255295,0.00032802045,0.000025104633,0.00071501883,0.9936674,0.000024482191,0.0014099859,0.000007133004],"about_ca_topic_score_codex":0.0016667902,"about_ca_topic_score_gemma":0.0016544934,"teacher_disagreement_score":0.0026907441,"about_ca_system_score_codex":0.00041763016,"about_ca_system_score_gemma":0.00032128123,"threshold_uncertainty_score":0.009001374},"labels":[],"label_agreement":null}]}