{"meta":{"page":1,"per_page":50,"max_per_page":100,"total":197,"total_is_capped":false,"direct_labels_cover":0,"predictions_cover":197,"direct_label_status":"direct model label, unvalidated","prediction_status":"machine_predicted_unvalidated (Codex and Gemma teacher distillation)","score_status":"score_only:v0-immature-baseline (scores rank; they never assert a category)","snapshot":{"source":"OpenAlex, pinned release, all 482 partitions","release":"2026-06-24","frame_built":"2026-07-12","author_layer_release":"2026-06-26"},"query_hash":"055981eb8e3e","filters":{"venue":"mSphere"}},"results":[{"id":"W2510962849","doi":"10.1128/msphere.00199-16","title":"Extreme Dysbiosis of the Microbiome in Critical Illness","year":2016,"lang":"en","type":"article","venue":"mSphere","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":422,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"Southlake Regional Health Center; Kingston General Hospital; Clinical Evaluation Research Unit; Queen's University","funders":"","keywords":"Dysbiosis; Microbiome; Medicine; Intensive care medicine; Critical illness; Sepsis; Disease; Critically ill; Immunology; Bioinformatics; Internal medicine; Biology","authors":[{"name":"Daniel McDonald","is_ca":false},{"name":"Gail Ackermann","is_ca":false},{"name":"Ludmila Khailová","is_ca":false},{"name":"Christine Baird","is_ca":false},{"name":"Daren K. Heyland","is_ca":true},{"name":"Rosemary A. Kozar","is_ca":false},{"name":"Margot Lemieux","is_ca":true},{"name":"Karrie Derenski","is_ca":false},{"name":"Judy King","is_ca":true},{"name":"Christine Vis-Kampen","is_ca":true},{"name":"Rob Knight","is_ca":false},{"name":"Paul E. Wischmeyer","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01815392225488953,"gpt":0.2764949230130806,"spread":0.2583410007581911,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006783798,0.0003218855,0.0003110989,0.0007278187,0.0005441644,0.0007250016,0.0002416794,0.0003014414,0.000722196],"category_scores_gemma":[0.001272792,0.000168814,0.0001898171,0.00066486,0.0005788637,0.0004623902,0.000797849,0.0006591565,0.0001673994],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005128622,"about_ca_system_score_gemma":0.0009087352,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00697418,"about_ca_topic_score_gemma":0.014455,"domain_scores_codex":[0.9996175,0.000112722,0.00002021304,0.0000818167,0.00009416515,0.0000735364],"domain_scores_gemma":[0.9994233,0.0001237078,0.0001491502,0.00006471865,0.0001014178,0.0001378254],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001522008,0.0002362372,0.7463278,0.0003737966,0.00007953789,0.0002871007,0.0006015037,0.0005423864,0.1514488,0.0002779605,0.0007061751,0.09759675],"study_design_scores_gemma":[0.000008043617,0.0002670466,0.9883009,0.00005251855,0.00002651106,0.0004261415,0.0003737427,0.0006055542,0.00809939,0.0003467699,0.001476945,0.00001652517],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9887473,0.005131669,0.002988393,0.0006078655,0.00003083594,0.0000864582,0.0005010605,0.00005134505,0.001855036],"genre_scores_gemma":[0.9911356,0.002008229,0.005781471,0.0003142744,0.00003651379,0.00003306292,0.0003924443,0.00001548876,0.0002828044],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00697418,"threshold_uncertainty_score":0.0138672,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2576825974","doi":"10.1128/msphere.00357-16","title":"The Case for Adopting the “Species Complex” Nomenclature for the Etiologic Agents of Cryptococcosis","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Fungal Infections and Studies","field":"Medicine","cited_by":415,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University; Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"National Institute of Allergy and Infectious Diseases; Biotechnology and Biological Sciences Research Council; Medical Research Council; National Institutes of Health","keywords":"Cryptococcus neoformans; Biology; Clade; Cryptococcosis; Cryptococcus gattii; Species complex; Genetic diversity; Phylogenetic tree; Confusion; Nomenclature; Population; Cryptococcus; Evolutionary biology; Genotype; Zoology; Taxonomy (biology); Genetics; Microbiology; Gene; Medicine","authors":[{"name":"Kyung J. Kwon‐Chung","is_ca":false},{"name":"John E. Bennett","is_ca":false},{"name":"Brian L. Wickes","is_ca":false},{"name":"Wieland Meyer","is_ca":false},{"name":"Christina A. Cuomo","is_ca":false},{"name":"Kurt R. Wollenburg","is_ca":false},{"name":"Tihana Bicanic","is_ca":false},{"name":"Elizabeth Castañeda","is_ca":false},{"name":"Yun C. Chang","is_ca":false},{"name":"Jianghan Chen","is_ca":false},{"name":"Massimo Cogliati","is_ca":false},{"name":"Françoise Dromer","is_ca":false},{"name":"David Ellis","is_ca":false},{"name":"Scott G. Filler","is_ca":false},{"name":"Matthew C. Fisher","is_ca":false},{"name":"Thomas S. Harrison","is_ca":false},{"name":"Steven M. Holland","is_ca":false},{"name":"Shigeru Kohno","is_ca":false},{"name":"James W. Kronstad","is_ca":true},{"name":"Márcia Lazéra","is_ca":false},{"name":"Stuart M. Levitz","is_ca":false},{"name":"Michail S. Lionakis","is_ca":false},{"name":"Robin C. May","is_ca":false},{"name":"Popchai Ngamskulrongroj","is_ca":false},{"name":"Peter G. Pappas","is_ca":false},{"name":"John R. Perfect","is_ca":false},{"name":"Volker Rickerts","is_ca":false},{"name":"Tania C. Sorrell","is_ca":false},{"name":"Thomas J. Walsh","is_ca":false},{"name":"Peter R. Williamson","is_ca":false},{"name":"Jianping Xu","is_ca":true},{"name":"Adrian M. Zelazny","is_ca":false},{"name":"Arturo Casadevall","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.1600323889016099,"gpt":0.373398368139616,"spread":0.2133659792380061,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.09213733,0.0007996183,0.001799536,0.003157947,0.005430458,0.007902232,0.007873711,0.01737633,0.003960088],"category_scores_gemma":[0.1196848,0.000783185,0.001772787,0.002260797,0.03046225,0.01985092,0.006430095,0.04079586,0.002765244],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.003737767,"about_ca_system_score_gemma":0.007818119,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005233305,"about_ca_topic_score_gemma":0.009226563,"domain_scores_codex":[0.9423381,0.03611496,0.005618812,0.003332876,0.01025959,0.002335707],"domain_scores_gemma":[0.8482677,0.0700825,0.01268402,0.01845454,0.03803565,0.01247557],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.0005325148,0.0002869923,0.01925878,0.001992972,0.0002311098,0.007450479,0.01765866,0.000772495,0.005073055,0.3208343,0.4446568,0.1812518],"study_design_scores_gemma":[0.0001284813,0.0003245892,0.005610413,0.005046071,0.0001577509,0.01510998,0.01464108,0.002361749,0.001311389,0.2213955,0.7335735,0.0003393822],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"commentary","genre_gemma":"commentary","genre_scores_codex":[0.006269063,0.008283181,0.01655992,0.9363938,0.02423592,0.00009877863,0.00004627631,0.000154674,0.007958328],"genre_scores_gemma":[0.1417136,0.01140808,0.1083627,0.6913483,0.04058636,0.0003797388,0.0001353727,0.0003854464,0.005680381],"genre_candidate":"commentary","genre_consensus":"commentary","teacher_disagreement_score":0.09213733,"threshold_uncertainty_score":0.4872746,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2563295531","doi":"10.1128/msphere.00275-16","title":"A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses","year":2016,"lang":"en","type":"article","venue":"mSphere","topic":"Influenza Virus Research Studies","field":"Medicine","cited_by":221,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Canadian Food Inspection Agency","funders":"Laboratory Directed Research and Development; Animal and Plant Health Inspection Service; Oak Ridge Institute for Science and Education; European Commission; National Institute of Allergy and Infectious Diseases; Agricultural Research Service","keywords":"Annotation; Nomenclature; Hemagglutinin (influenza); Biology; Phylogenetics; Virology; Gene nomenclature; Gene; Computational biology; Genetics; Virus; Taxonomy (biology); Zoology","authors":[{"name":"Tavis K. Anderson","is_ca":false},{"name":"Catherine A. Macken","is_ca":false},{"name":"Nicola S. Lewis","is_ca":false},{"name":"Richard H. Scheuermann","is_ca":false},{"name":"Kristien Van Reeth","is_ca":false},{"name":"Ian H. Brown","is_ca":false},{"name":"Sabrina L. Swenson","is_ca":false},{"name":"Gaëlle Simon","is_ca":false},{"name":"Takehiko Saito","is_ca":false},{"name":"Yohannes Berhane","is_ca":true},{"name":"J. R. C. Zanella","is_ca":false},{"name":"Ariel Pereda","is_ca":false},{"name":"C. Todd Davis","is_ca":false},{"name":"Rubén O. Donis","is_ca":false},{"name":"Richard J. Webby","is_ca":false},{"name":"Amy L. Vincent","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.05642782131485694,"gpt":0.3659144924469142,"spread":0.3094866711320573,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.005235299,0.002132704,0.0013809,0.010659,0.00224337,0.003106303,0.002012842,0.001918521,0.01490586],"category_scores_gemma":[0.01501969,0.000898179,0.001727686,0.008580397,0.0005473914,0.004197217,0.002964303,0.002180763,0.008932271],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001272975,"about_ca_system_score_gemma":0.003048464,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003705187,"about_ca_topic_score_gemma":0.00479135,"domain_scores_codex":[0.997767,0.0005375646,0.0005547498,0.0006314951,0.0003734237,0.0001357096],"domain_scores_gemma":[0.9937925,0.002518775,0.001026997,0.0008855783,0.001409218,0.0003670233],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001136953,0.000648361,0.02158677,0.004574138,0.0003292333,0.002372357,0.006124224,0.006998868,0.07193392,0.01680597,0.3526662,0.514823],"study_design_scores_gemma":[0.0003067075,0.0004483645,0.03855036,0.001429756,0.0003607589,0.002048668,0.002328543,0.1002482,0.02856844,0.02706685,0.7981229,0.000520394],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02904932,0.001425885,0.6373058,0.001061962,0.0007254528,0.001435691,0.132777,0.1856239,0.01059498],"genre_scores_gemma":[0.03517943,0.0005790017,0.8077836,0.0002764958,0.000100544,0.001260118,0.1426127,0.008909517,0.003298615],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01490586,"threshold_uncertainty_score":0.04986513,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2756730981","doi":"10.1128/msphere.00327-17","title":"The Gut Microbiota of Healthy Aged Chinese Is Similar to That of the Healthy Young","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":191,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Children’s Health Research Institute; Lawson Health Research Institute; Western University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Gut flora; Cohort; Population; Disease; Demography; Healthy aging; Chinese population; Cohort study; Gerontology; Medicine; Biology; Immunology; Environmental health; Internal medicine; Genetics; Genotype","authors":[{"name":"Gaorui Bian","is_ca":false},{"name":"Gregory B. Gloor","is_ca":true},{"name":"Aihua Gong","is_ca":false},{"name":"Changsheng Jia","is_ca":false},{"name":"Wei Zhang","is_ca":false},{"name":"Jun Hu","is_ca":false},{"name":"Hong Zhang","is_ca":false},{"name":"Yumei Zhang","is_ca":false},{"name":"Zhenqing Zhou","is_ca":false},{"name":"Jiangao Zhang","is_ca":false},{"name":"Jeremy P. Burton","is_ca":true},{"name":"Gregor Reid","is_ca":true},{"name":"Yongliang Xiao","is_ca":false},{"name":"Qiang Zeng","is_ca":false},{"name":"Kaiping Yang","is_ca":true},{"name":"Jiangang Li","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01292925795986622,"gpt":0.2944359384566961,"spread":0.2815066804968299,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005453978,0.0001763529,0.0002405082,0.0007470228,0.0006462907,0.00045338,0.0001364915,0.0001615472,0.001350351],"category_scores_gemma":[0.0006412425,0.0001162053,0.0001800742,0.000643474,0.0003241533,0.0003223403,0.0003289036,0.0001108959,0.0001788568],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002463272,"about_ca_system_score_gemma":0.0005544102,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01315822,"about_ca_topic_score_gemma":0.01826884,"domain_scores_codex":[0.9997967,0.0000362065,0.00001754241,0.0000574367,0.00004965843,0.00004246206],"domain_scores_gemma":[0.9997433,0.00002212128,0.00007252036,0.0000443071,0.00005673788,0.0000610047],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0004155074,0.0000888978,0.8835131,0.000094916,0.0001383535,0.0004628917,0.001079811,0.00007563208,0.09410328,0.0001912361,0.0002593013,0.0195771],"study_design_scores_gemma":[0.000003070458,0.0001461088,0.9975939,0.000003911914,0.00001957833,0.0001907899,0.0002379292,0.00005218478,0.001169979,0.00004648414,0.0005321707,0.000003746709],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9980496,0.0001709528,0.0004997674,0.00003514741,0.000006318698,0.00002206599,0.0003118287,0.000007560767,0.0008968719],"genre_scores_gemma":[0.9980808,0.0001763411,0.0008480094,0.00007864971,0.00001140743,0.00001661724,0.0003395012,0.000004800391,0.0004438133],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01315822,"threshold_uncertainty_score":0.02616322,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2953063653","doi":"10.1128/msphere.00163-19","title":"The Impact of DNA Polymerase and Number of Rounds of Amplification in PCR on 16S rRNA Gene Sequence Data","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":131,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"National Center for Advancing Translational Sciences; National Institute of Diabetes and Digestive and Kidney Diseases; Government of Canada; National Institutes of Health; National Cancer Institute; Canadian Institutes of Health Research","keywords":"Biology; Polymerase chain reaction; Genetics; Polymerase; 16S ribosomal RNA; Sequence (biology); Gene; Computational biology; Molecular biology","authors":[{"name":"Marc A. Sze","is_ca":false},{"name":"Patrick D. Schloss","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.02809908080190881,"gpt":0.3071975677592582,"spread":0.2790984869573493,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.040166,0.002436281,0.0019379,0.001946904,0.001139701,0.004232325,0.001653636,0.001838372,0.001886286],"category_scores_gemma":[0.1664288,0.002687689,0.001690881,0.002895295,0.002790856,0.00354463,0.002404811,0.004496702,0.001902921],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001482688,"about_ca_system_score_gemma":0.001746598,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003521398,"about_ca_topic_score_gemma":0.007480284,"domain_scores_codex":[0.8804389,0.05930116,0.01279645,0.01208819,0.0330245,0.002350896],"domain_scores_gemma":[0.7315907,0.2256537,0.01415163,0.0142492,0.01295733,0.001397523],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.003077797,0.000755203,0.02861443,0.002673998,0.0007068691,0.0005824292,0.001483503,0.0227676,0.851682,0.001583139,0.001498231,0.08457483],"study_design_scores_gemma":[0.00006088917,0.002477201,0.03375486,0.0003381296,0.0004818295,0.0007943206,0.0003838135,0.02740506,0.9217916,0.00192763,0.0103242,0.0002604573],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6678432,0.02604598,0.2823305,0.004276359,0.00194258,0.001572617,0.003110922,0.001824172,0.01105376],"genre_scores_gemma":[0.6029209,0.007434847,0.375838,0.002411673,0.0003741331,0.001457141,0.003036544,0.002281136,0.004245611],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.040166,"threshold_uncertainty_score":0.2124207,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2749498758","doi":"10.1128/msphere.00243-17","title":"Butyrate Supplementation at High Concentrations Alters Enteric Bacterial Communities and Reduces Intestinal Inflammation in Mice Infected with Citrobacter rodentium","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":117,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta; Agriculture and Agri-Food Canada","funders":"Agriculture and Agri-Food Canada; Health Canada; Alberta Innovates; Alberta Innovates Bio Solutions; Alberta Innovates - Health Solutions; General Mills","keywords":"Butyrate; Citrobacter rodentium; Microbiology; Biology; Inflammation; Gut flora; Lachnospiraceae; Citrobacter; Immunology; Bacteria; Food science; Enterobacteriaceae; Firmicutes; Biochemistry; Fermentation; Escherichia coli","authors":[{"name":"Janelle A. Jiminez","is_ca":true},{"name":"Trina C. Uwiera","is_ca":true},{"name":"D. Wade Abbott","is_ca":true},{"name":"Richard R. E. Uwiera","is_ca":true},{"name":"G. Douglas Inglis","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01051871324291591,"gpt":0.2516643691447497,"spread":0.2411456559018337,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002150304,0.0005781421,0.0004020433,0.0003691222,0.0001679662,0.0002905332,0.0002324066,0.0004204008,0.0008686358],"category_scores_gemma":[0.0001980172,0.0002667206,0.0001947491,0.0001501045,0.0003258736,0.0003548345,0.000237631,0.0008262879,0.0001972518],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002106204,"about_ca_system_score_gemma":0.0002201599,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006046863,"about_ca_topic_score_gemma":0.001340357,"domain_scores_codex":[0.9997709,0.0000556,0.00002152162,0.00003888174,0.00004696926,0.00006602311],"domain_scores_gemma":[0.9997531,0.00002130489,0.00007698,0.00002445382,0.00002337828,0.0001008622],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0009843293,0.0001009136,0.0001917156,0.00002310335,0.000004773529,0.00001456149,0.00001188567,0.00002719365,0.9977639,0.00001285309,0.00001585297,0.0008488799],"study_design_scores_gemma":[0.00009766071,0.0049365,0.00871165,0.0000183375,0.00004086243,0.00007178409,0.00006863011,0.0004440614,0.9845645,0.00008272279,0.0009529566,0.0000104216],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.996806,0.0009662719,0.001162715,0.00021446,0.0000560304,0.00002806214,0.0002572983,0.00005336443,0.0004556944],"genre_scores_gemma":[0.9933395,0.001020096,0.002454804,0.0001896846,0.00002065153,0.00005528228,0.0003224078,0.00003366674,0.002563972],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008686358,"threshold_uncertainty_score":0.002905905,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3090909822","doi":"10.1128/msphere.00451-20","title":"Assessing the Variation within the Oral Microbiome of Healthy Adults","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Oral microbiology and periodontitis research","field":"Dentistry","cited_by":117,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"Canadian Institutes of Health Research; Nova Scotia Health Research Foundation; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Variation (astronomy); Microbiome; Oral Microbiome; Psychology; Medicine; Biology; Bioinformatics","authors":[{"name":"Jacob T. Nearing","is_ca":true},{"name":"Vanessa DeClercq","is_ca":true},{"name":"Johan Van Limbergen","is_ca":true},{"name":"Morgan G. I. Langille","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.04283621799451705,"gpt":0.3421298768276084,"spread":0.2992936588330913,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0009940621,0.0002047057,0.0003192471,0.0006121356,0.0003634542,0.0004708832,0.0001470251,0.0004013655,0.000878109],"category_scores_gemma":[0.002272304,0.0001356009,0.0002233904,0.0005551174,0.0002079469,0.0002879144,0.0004580558,0.000198765,0.0002134105],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001095292,"about_ca_system_score_gemma":0.0001414946,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001291302,"about_ca_topic_score_gemma":0.002451018,"domain_scores_codex":[0.9992938,0.0002091768,0.00006865759,0.000220885,0.0001405786,0.00006695709],"domain_scores_gemma":[0.999435,0.0001982544,0.0001654494,0.00006089691,0.00008357999,0.0000566554],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0002103852,0.00003668051,0.976043,0.00004122913,0.000103362,0.00006581545,0.0003531718,0.00006654847,0.0085251,0.00005389367,0.0001474706,0.01435333],"study_design_scores_gemma":[0.000003073033,0.000177171,0.9978604,0.000008709315,0.00003503196,0.000242331,0.0003334605,0.0001681763,0.0007014673,0.00007402317,0.0003927628,0.000003448254],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998314,0.0004322786,0.0005995598,0.00002663667,0.000006391886,0.000009644275,0.0002443783,0.000004944196,0.0003621295],"genre_scores_gemma":[0.9980458,0.0001922861,0.001235025,0.00003554914,0.000008148992,0.00001348297,0.0002551563,0.00000290384,0.0002116303],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001291302,"threshold_uncertainty_score":0.00525713,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3007449302","doi":"10.1128/msphere.00558-19","title":"Age-Related Variation of Bacterial and Fungal Communities in Different Body Habitats across the Young, Elderly, and Centenarians in Sardinia","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":93,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University","funders":"Natural Sciences and Engineering Research Council of Canada; Consiglio Nazionale delle Ricerche; Canada Research Chairs; Government of Canada; Ministero dell’Istruzione, dell’Università e della Ricerca; Li Ka Shing Foundation","keywords":"Biology; Ecology; Gut flora; Habitat; Population; Mycobiota; Host (biology); Zoology; Environmental health; Immunology; Medicine","authors":[{"name":"Lu Wu","is_ca":false},{"name":"Tiansheng Zeng","is_ca":false},{"name":"Massimo Deligios","is_ca":false},{"name":"Luciano Milanesi","is_ca":false},{"name":"Morgan G. I. Langille","is_ca":true},{"name":"Angelo Zinellu","is_ca":false},{"name":"Salvatore Rubino","is_ca":false},{"name":"Ciriaco Carru","is_ca":false},{"name":"David J. Kelvin","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01191636471897738,"gpt":0.2452145283885129,"spread":0.2332981636695355,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000156841,0.0001670016,0.0002303196,0.0006715517,0.0002730234,0.0003653534,0.0001184202,0.0002039148,0.000860952],"category_scores_gemma":[0.0003259351,0.000112127,0.0001492461,0.0004418435,0.0003001696,0.000163696,0.0003652624,0.0001414646,0.0001144685],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003283012,"about_ca_system_score_gemma":0.0001319948,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0150131,"about_ca_topic_score_gemma":0.0240366,"domain_scores_codex":[0.9998956,0.0000181416,0.000008745884,0.00004212606,0.00001023331,0.00002520729],"domain_scores_gemma":[0.9998587,0.00001380317,0.00005351826,0.00001243541,0.00002925932,0.00003231973],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0004769223,0.00003208648,0.9693458,0.000041859,0.0000707022,0.0002742115,0.002485594,0.00009499071,0.01387913,0.00008329564,0.0001702767,0.01304519],"study_design_scores_gemma":[6.334833e-7,0.00002674493,0.9993572,0.000002345721,0.000005989323,0.00006448507,0.0003506685,0.00003189921,0.00006082362,0.0000123467,0.00008542217,0.000001416278],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9994944,0.0001852084,0.00004731012,0.00001273673,0.00000186845,0.000001173217,0.0000799407,0.00000188913,0.0001754348],"genre_scores_gemma":[0.9995628,0.0001008031,0.00007065755,0.00001008727,0.000002049626,0.000002091934,0.0000652493,7.858708e-7,0.0001854654],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0150131,"threshold_uncertainty_score":0.02985144,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2583467547","doi":"10.1128/msphere.00019-17","title":"Global Population Genetic Analysis of Aspergillus fumigatus","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":85,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Aspergillus fumigatus; Biology; Microsatellite; Genetic diversity; Gene flow; Genetic variation; Population; Genetics; Fungal pathogen; Gene; Evolutionary biology; Microbiology; Allele; Medicine","authors":[{"name":"Eta E. Ashu","is_ca":true},{"name":"Ferry Hagen","is_ca":false},{"name":"Anuradha Chowdhary","is_ca":false},{"name":"Jacques F. Meis","is_ca":false},{"name":"Jianping Xu","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01677359431358346,"gpt":0.322711136491206,"spread":0.3059375421776225,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005314332,0.0002440068,0.0002373513,0.001461704,0.0001719663,0.0002769922,0.0001297364,0.0001704933,0.0007566412],"category_scores_gemma":[0.0005375228,0.00009160006,0.0003703811,0.001138582,0.0001790985,0.0001519159,0.0003571158,0.0002262429,0.0001121638],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001737309,"about_ca_system_score_gemma":0.0001448352,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003018117,"about_ca_topic_score_gemma":0.004789263,"domain_scores_codex":[0.9997727,0.00005283601,0.000009433596,0.0001085767,0.00002996656,0.00002655282],"domain_scores_gemma":[0.9997893,0.00003857406,0.00005129769,0.00003088772,0.00005637797,0.00003357982],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0002698782,0.00005495487,0.8911582,0.00005945672,0.000603763,0.0002633709,0.0007496105,0.00269537,0.06386413,0.000563687,0.0005013223,0.03921624],"study_design_scores_gemma":[0.000005574587,0.00007038761,0.9972645,0.000004308602,0.00005804279,0.0001823368,0.0001600351,0.0009521228,0.0004945341,0.0001287031,0.0006738564,0.00000568207],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9968666,0.0002329149,0.001583002,0.0000307208,0.000003851832,0.000008782104,0.0005209547,0.00001512031,0.0007379905],"genre_scores_gemma":[0.9969937,0.0001608531,0.00138256,0.00001843087,0.000004803098,0.00001075289,0.001226264,0.000005755226,0.0001970002],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003018117,"threshold_uncertainty_score":0.006001115,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2772440592","doi":"10.1128/msphere.00555-17","title":"The Human Gut Microbial Metabolome Modulates Fungal Growth via the TOR Signaling Pathway","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Microbial Metabolites in Food Biotechnology","field":"Nursing","cited_by":80,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph; Université Laval","funders":"Fonds de Recherche du Québec - Santé; Government of Canada; National Institutes of Health; Canada Foundation for Innovation; National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada","keywords":"Metabolome; Biology; Signal transduction; Fungal growth; Microbiology; Cell biology; Metabolomics; Bioinformatics","authors":[{"name":"Carlos García","is_ca":true},{"name":"Faïza Tebbji","is_ca":true},{"name":"Michelle C. Daigneault","is_ca":true},{"name":"Ning-Ning Liu","is_ca":false},{"name":"Julia R. Köhler","is_ca":false},{"name":"Emma Allen‐Vercoe","is_ca":true},{"name":"Adnane Sellam","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01488441713124022,"gpt":0.2532554569867605,"spread":0.2383710398555203,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001302261,0.0002962202,0.0003021795,0.0001948096,0.0001974262,0.0004610628,0.00008369932,0.0002875882,0.003144994],"category_scores_gemma":[0.0001907419,0.00009055665,0.0002574965,0.0001247671,0.0001474406,0.0002173346,0.0003111129,0.0004509599,0.000501504],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002271564,"about_ca_system_score_gemma":0.0002372163,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005303298,"about_ca_topic_score_gemma":0.0006934223,"domain_scores_codex":[0.9998827,0.00003261298,0.000004181562,0.0000203623,0.00001633595,0.00004384264],"domain_scores_gemma":[0.9999611,0.000008087568,0.00000960223,0.000002523276,0.000006675494,0.00001187079],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.005996333,0.0001589985,0.002435092,0.0003105668,0.00003951608,0.000209881,0.00005750148,0.000172119,0.9726136,0.0001910413,0.0009931818,0.01682213],"study_design_scores_gemma":[0.0003296844,0.003421569,0.1884011,0.0001473041,0.0002743406,0.0009022198,0.0008126544,0.003232644,0.7853659,0.0008093356,0.01623466,0.000068698],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.974606,0.01738647,0.001092236,0.000995434,0.0001887385,0.000040473,0.001190993,0.00007072855,0.004428953],"genre_scores_gemma":[0.9911171,0.005588133,0.0005868487,0.0003234874,0.00003428676,0.00003574488,0.0005123377,0.00001312808,0.001789],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003144994,"threshold_uncertainty_score":0.01052099,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2577803396","doi":"10.1128/msphere.00340-16","title":"Optimized CRISPR-Cas9 Genome Editing for <i>Leishmania</i> and Its Use To Target a Multigene Family, Induce Chromosomal Translocation, and Study DNA Break Repair Mechanisms","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":79,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University","funders":"Canadian Institutes of Health Research; Government of Canada","keywords":"Biology; CRISPR; Genome editing; Cas9; Genetics; Gene; Guide RNA; Recombinase; Homologous recombination","authors":[{"name":"Wen‐Wei Zhang","is_ca":true},{"name":"Patrick Lypaczewski","is_ca":true},{"name":"Greg Matlashewski","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01774999224538712,"gpt":0.2934497100654763,"spread":0.2756997178200892,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002252423,0.0005707535,0.0004136111,0.0003723495,0.0002677666,0.0004182112,0.0004907994,0.0005437349,0.001947732],"category_scores_gemma":[0.0002312442,0.0002822487,0.0005186714,0.0002995684,0.0002869881,0.0002569464,0.0003657441,0.0009346972,0.0006935347],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004644635,"about_ca_system_score_gemma":0.0005232408,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00129251,"about_ca_topic_score_gemma":0.003384261,"domain_scores_codex":[0.999696,0.00004114098,0.00004184472,0.00008494753,0.00009244512,0.00004360256],"domain_scores_gemma":[0.9998558,0.00002281214,0.00005168388,0.00002893303,0.00002206957,0.00001870487],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00003495766,0.00001846846,0.0001013898,0.00004738792,0.00001063293,0.00005760257,0.000009512908,0.0003886172,0.9960925,0.000332567,0.0001255169,0.002780793],"study_design_scores_gemma":[0.00001134626,0.00008632402,0.001011183,0.000004106433,0.00002256415,0.0003392804,0.000007867709,0.001996157,0.9887609,0.00009662301,0.00764725,0.00001639593],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.721911,0.001635618,0.2596934,0.0004385006,0.0002271978,0.0005438359,0.004393502,0.002739748,0.008417237],"genre_scores_gemma":[0.8065321,0.001117054,0.1750495,0.0001866488,0.00001946903,0.0003117833,0.00583492,0.0005359791,0.01041251],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001947732,"threshold_uncertainty_score":0.006515801,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2911838180","doi":"10.1128/msphere.00002-19","title":"A CRISPR Interference Platform for Efficient Genetic Repression in <i>Candida albicans</i>","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":75,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada; Banting Research Foundation; University of Guelph","keywords":"CRISPR; CRISPR interference; Biology; Candida albicans; Cas9; Psychological repression; Virulence; Gene; RNA interference; Repressor; Genetics; Pathogen; Genetic screen; Trans-activating crRNA; Corpus albicans; Fungal pathogen; Human pathogen; Computational biology; RNA; Gene expression; Mutant","authors":[{"name":"Lauren Wensing","is_ca":true},{"name":"Jehoshua Sharma","is_ca":true},{"name":"Deeva Uthayakumar","is_ca":true},{"name":"Yannic Proteau","is_ca":true},{"name":"Alejandro Chavez","is_ca":false},{"name":"Rebecca S. Shapiro","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00633170988995219,"gpt":0.2769470367006662,"spread":0.270615326810714,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003136652,0.0005326175,0.0003160073,0.0003437683,0.0003897434,0.0005705943,0.0006943316,0.0005230284,0.002288988],"category_scores_gemma":[0.0002185309,0.000295853,0.0003824366,0.0002648912,0.0003095486,0.0002260099,0.0005182743,0.001103743,0.001132568],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005127841,"about_ca_system_score_gemma":0.0005932548,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001208133,"about_ca_topic_score_gemma":0.001707773,"domain_scores_codex":[0.9996,0.00003892407,0.00004368753,0.0001022084,0.0001670211,0.00004813425],"domain_scores_gemma":[0.9998595,0.00002462423,0.00004364385,0.00002846592,0.00001971929,0.00002413004],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.000026362,0.00001457116,0.00004533558,0.00003112091,0.000004079121,0.00004790566,0.00001238481,0.0001748357,0.9954754,0.0005592458,0.000315791,0.003293106],"study_design_scores_gemma":[0.000006342444,0.00004844648,0.0003140229,0.000004329348,0.000006698912,0.0001728551,0.000005162856,0.001342639,0.9896514,0.00006781558,0.008369428,0.00001068494],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.529097,0.003060453,0.4156978,0.001351761,0.0006055932,0.0007909664,0.006183464,0.01061892,0.03259407],"genre_scores_gemma":[0.764168,0.001799923,0.2034502,0.0004493461,0.00004467885,0.000496743,0.004928994,0.0008736605,0.02378854],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002288988,"threshold_uncertainty_score":0.007657468,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3015328062","doi":"10.1128/msphere.00153-20","title":"Functional Characterization of Clinical Isolates of the Opportunistic Fungal Pathogen Aspergillus nidulans","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":69,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Concordia University","funders":"National Institute on Aging; European Regional Development Fund; Conselho Nacional de Desenvolvimento Científico e Tecnológico; Universidade Federal de Minas Gerais; Ministério da Ciência, Tecnologia e Inovação; AW Howard Memorial Trust; Fundação de Amparo à Pesquisa do Estado de São Paulo; Howard Hughes Medical Institute","keywords":"Aspergillus nidulans; Virulence; Biology; Microbiology; Context (archaeology); Aspergillus; Chronic granulomatous disease; Aspergillus fumigatus; Gene; Genetics","authors":[{"name":"Rafael Wesley Bastos","is_ca":false},{"name":"Clara Valero","is_ca":false},{"name":"Lilian Pereira Silva","is_ca":false},{"name":"Taylor J. Schoen","is_ca":false},{"name":"Milton T. Drott","is_ca":false},{"name":"Verônica S. Brauer","is_ca":false},{"name":"Rafael Silva‐Rocha","is_ca":false},{"name":"Abigail Lind","is_ca":false},{"name":"Jacob L. Steenwyk","is_ca":false},{"name":"Antonis Rokas","is_ca":false},{"name":"Fernando Rodrigues","is_ca":false},{"name":"Agustin Reséndiz-Sharpe","is_ca":false},{"name":"Katrien Lagrou","is_ca":false},{"name":"Marina Marcet‐Houben","is_ca":false},{"name":"Toni Gabaldón","is_ca":false},{"name":"Erin McDonnell","is_ca":true},{"name":"Ian D. Reid","is_ca":true},{"name":"Adrian Tsang","is_ca":true},{"name":"Berl R. Oakley","is_ca":false},{"name":"Flávio V. Loures","is_ca":false},{"name":"Fausto Almeida","is_ca":false},{"name":"Anna Huttenlocher","is_ca":false},{"name":"Nancy P. Keller","is_ca":false},{"name":"Laure Nicolas Annick Ries","is_ca":false},{"name":"Gustavo H. Goldman","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.08270442474911646,"gpt":0.3060442277107621,"spread":0.2233398029616456,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002255735,0.0004225434,0.0003737994,0.0005787271,0.0002176135,0.0004739088,0.0002515552,0.0003471786,0.0006044261],"category_scores_gemma":[0.0008055653,0.0001094938,0.0003353657,0.0007269062,0.0002056216,0.000258421,0.0003429518,0.0003962685,0.0003809103],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001628241,"about_ca_system_score_gemma":0.0002588343,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002028316,"about_ca_topic_score_gemma":0.001553277,"domain_scores_codex":[0.9995714,0.00005601901,0.00007459183,0.00008609136,0.0001591177,0.00005281142],"domain_scores_gemma":[0.9995806,0.0000770265,0.00006841776,0.00004406115,0.0001711703,0.00005882386],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001332384,0.0001672981,0.0106824,0.00009534004,0.00001663809,0.0003674658,0.0001262829,0.00009118135,0.9842514,0.0000485786,0.0001653725,0.003854765],"study_design_scores_gemma":[0.00004741013,0.001285929,0.3415693,0.00005690343,0.0001431746,0.009500287,0.002034538,0.001809798,0.6340536,0.0002624234,0.009192433,0.0000442533],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9925541,0.0007767658,0.001185735,0.0002277993,0.00003484464,0.0001112917,0.00409829,0.00002445152,0.0009868436],"genre_scores_gemma":[0.9811847,0.0008235961,0.005702125,0.0002155462,0.0000344004,0.0001143289,0.01067251,0.00002916313,0.001223728],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002028316,"threshold_uncertainty_score":0.004033089,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3190598927","doi":"10.1128/msphere.00647-21","title":"Human Basigin (CD147) Does Not Directly Interact with SARS-CoV-2 Spike Glycoprotein","year":2021,"lang":"en","type":"article","venue":"mSphere","topic":"Signaling Pathways in Disease","field":"Biochemistry, Genetics and Molecular Biology","cited_by":68,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; UK Research and Innovation; Government of Canada; Wellcome Trust; Medical Research Council; Wellcome","keywords":"Basigin; Coronavirus disease 2019 (COVID-19); Spike (software development); Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Glycoprotein; 2019-20 coronavirus outbreak; Virology; Medicine; Intensive care medicine; Spike Protein; Computer science; Biology; Disease; Outbreak; Infectious disease (medical specialty); Internal medicine","authors":[{"name":"Robert J. Ragotte","is_ca":false},{"name":"David Pulido","is_ca":false},{"name":"Francesca R. Donnellan","is_ca":false},{"name":"Michelle L. Hill","is_ca":false},{"name":"Giacomo Gorini","is_ca":false},{"name":"H. Dele Davies","is_ca":false},{"name":"Juliane Brun","is_ca":false},{"name":"Kirsty McHugh","is_ca":false},{"name":"Lloyd D. W. King","is_ca":false},{"name":"Katherine Skinner","is_ca":false},{"name":"Kazutoyo Miura","is_ca":false},{"name":"Carole A. Long","is_ca":false},{"name":"Nicole Zitzmann","is_ca":false},{"name":"Simon J. Draper","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01575226099832167,"gpt":0.2749338319094162,"spread":0.2591815709110945,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009073757,0.0001510517,0.0001564411,0.00006152844,0.0001061237,0.000229203,0.0002173108,0.0003470706,0.002465818],"category_scores_gemma":[0.0001565935,0.00006768222,0.0001931713,0.00005190225,0.0001280178,0.0001659733,0.0001550521,0.0002991599,0.0006816529],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003746779,"about_ca_system_score_gemma":0.0001720806,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001205336,"about_ca_topic_score_gemma":0.001328684,"domain_scores_codex":[0.9998858,0.00002259124,0.000004564659,0.00002256097,0.00003223027,0.00003229898],"domain_scores_gemma":[0.9999518,0.00001307173,0.000009243107,0.000008978682,0.00000520014,0.00001157168],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00019971,0.00002988866,0.0009693365,0.00004051161,0.00001657391,0.0001597435,0.000019156,0.0001112169,0.9948144,0.0003752422,0.0002762171,0.002988099],"study_design_scores_gemma":[0.0000354369,0.0003915003,0.01179848,0.00001187148,0.00002240411,0.002160874,0.00004869819,0.002528415,0.9648233,0.0001933025,0.01797803,0.000007654096],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9896469,0.002347343,0.002180143,0.0004015327,0.00004342902,0.00002306223,0.000338202,0.00003446314,0.004985039],"genre_scores_gemma":[0.9934155,0.0004320983,0.001185433,0.0001728761,0.0000117426,0.00001037761,0.00088609,0.000009270185,0.003876722],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002465818,"threshold_uncertainty_score":0.008248985,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2568858948","doi":"10.1128/msphere.00297-16","title":"Gut Microbiome of the Canadian Arctic Inuit","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Indigenous Studies and Ecology","field":"Health Professions","cited_by":67,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Université de Montréal; Center for Northern Studies","funders":"Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Government of Canada","keywords":"Microbiome; Arctic; Diversity (politics); Western diet; Abundance (ecology); Geography; Population; Biology; Ecology; Zoology; Environmental health; Obesity; Medicine; Bioinformatics","authors":[{"name":"Catherine Girard","is_ca":true},{"name":"Nicolas Tromas","is_ca":true},{"name":"Marc Amyot","is_ca":true},{"name":"B. Jesse Shapiro","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.03861700072282554,"gpt":0.3545912574879345,"spread":0.315974256765109,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002273347,0.0002969067,0.0002895943,0.0008286704,0.003670643,0.001228697,0.0003092448,0.0002664222,0.002383862],"category_scores_gemma":[0.0004931857,0.0001583233,0.0001648545,0.001437458,0.0003815102,0.0002001109,0.0007416956,0.0002365385,0.0002916544],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.005503851,"about_ca_system_score_gemma":0.007683883,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.9560708,"about_ca_topic_score_gemma":0.9781782,"domain_scores_codex":[0.999705,0.00001984885,0.000009009535,0.00005832361,0.0001049263,0.000102882],"domain_scores_gemma":[0.999746,0.00001068849,0.00002799762,0.00000665899,0.000125755,0.00008285861],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0008022608,0.0001184425,0.8338061,0.0003302062,0.0001676917,0.001602171,0.021792,0.0003897606,0.08625825,0.0007644588,0.005463438,0.04850517],"study_design_scores_gemma":[0.000005577544,0.00005274721,0.9798242,0.00005953382,0.00005460963,0.0003631347,0.01024149,0.0003820065,0.001176835,0.00007509506,0.007744973,0.00001973188],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9913082,0.0005952689,0.0001968528,0.0002911069,0.00002043026,0.00002254062,0.001585077,0.0000104496,0.005970071],"genre_scores_gemma":[0.9941274,0.0007903403,0.0004677128,0.0002278374,0.000007468208,0.00001333529,0.0008111892,0.00001278962,0.003541842],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04392922,"threshold_uncertainty_score":0.08837581,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3143012963","doi":"10.1128/msphere.01019-20","title":"Evenness-Richness Scatter Plots: a Visual and Insightful Representation of Shannon Entropy Measurements for Ecological Community Analysis","year":2021,"lang":"en","type":"article","venue":"mSphere","topic":"Complex Network Analysis Techniques","field":"Physics and Astronomy","cited_by":66,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université Laval","funders":"","keywords":"Species evenness; Species richness; Diversity index; Mathematics; Statistics; Alpha diversity; Entropy (arrow of time); Generalized entropy index; Ecology; Physics; Biology; Cluster analysis","authors":[{"name":"Jeff Gauthier","is_ca":true},{"name":"Nicolas Derôme","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.05279468810453228,"gpt":0.336444075824561,"spread":0.2836493877200287,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002490194,0.001283055,0.0007549904,0.009570707,0.000572546,0.002542583,0.0006954465,0.0006250935,0.01843857],"category_scores_gemma":[0.01051457,0.0005398638,0.0006902875,0.005938184,0.0005574832,0.003297681,0.001485506,0.001410671,0.002617402],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003612718,"about_ca_system_score_gemma":0.000486159,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001354005,"about_ca_topic_score_gemma":0.001858674,"domain_scores_codex":[0.9991591,0.0002854369,0.00008979734,0.000118704,0.0002952924,0.0000517185],"domain_scores_gemma":[0.9942867,0.003527434,0.0007462093,0.0005258701,0.000741037,0.000172726],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"theoretical_or_conceptual","study_design_scores_codex":[0.0007769495,0.0004577809,0.02795282,0.00263894,0.0006235185,0.001243933,0.006845079,0.04732154,0.07405253,0.1680592,0.09645621,0.5735714],"study_design_scores_gemma":[0.0001512251,0.0003301861,0.05361782,0.0008747755,0.0001770893,0.0022336,0.002937603,0.4296117,0.03066234,0.3111913,0.1677373,0.0004749889],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02874042,0.0007153882,0.9379935,0.0003088391,0.0001748494,0.0002284155,0.008595702,0.01521321,0.008029726],"genre_scores_gemma":[0.2195795,0.0008030232,0.7662147,0.0001739772,0.0001632432,0.0006181711,0.005576888,0.003273997,0.003596471],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01843857,"threshold_uncertainty_score":0.06168318,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2801467281","doi":"10.1128/msphere.00090-18","title":"Beaver Fever: Whole-Genome Characterization of Waterborne Outbreak and Sporadic Isolates To Study the Zoonotic Transmission of Giardiasis","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Parasitic Infections and Diagnostics","field":"Immunology and Microbiology","cited_by":66,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Simon Fraser University; Provincial Health Services Authority; University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Giardia; Outbreak; Biology; Transmission (telecommunications); Waterborne diseases; Zoonosis; Genetic diversity; Beaver; Wildlife; Feces; Giardia lamblia; Genome; Veterinary medicine; Zoology; Ecology; Environmental health; Virology; Microbiology; Genetics; Population; Gene","authors":[{"name":"Clement K. M. Tsui","is_ca":true},{"name":"Ruth R. Miller","is_ca":true},{"name":"Miguel Uyaguari","is_ca":true},{"name":"Patrick Tang","is_ca":true},{"name":"Cédric Chauve","is_ca":true},{"name":"William Hsiao","is_ca":true},{"name":"Judith L. Isaac‐Renton","is_ca":true},{"name":"Natalie Prystajecky","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.009592784336674412,"gpt":0.2326409992646806,"spread":0.2230482149280062,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001956879,0.0002571827,0.0002163694,0.0008068767,0.0003335378,0.0003601968,0.0001500135,0.0002464374,0.0009223699],"category_scores_gemma":[0.0005520523,0.0001288479,0.0003040794,0.001084555,0.0001230003,0.0001451768,0.0002769458,0.0003799655,0.0003152373],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001369388,"about_ca_system_score_gemma":0.000298491,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.006063533,"about_ca_topic_score_gemma":0.01097799,"domain_scores_codex":[0.9998088,0.00002728496,0.00001451065,0.00006081428,0.00004128429,0.00004726168],"domain_scores_gemma":[0.9997427,0.00004726847,0.00008024886,0.00002587022,0.00005115421,0.00005284687],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0004376264,0.0002342548,0.2890168,0.0001830389,0.0001593248,0.0007527409,0.001658458,0.000376257,0.6814325,0.0002390549,0.001138331,0.02437166],"study_design_scores_gemma":[0.00001076996,0.0001879552,0.9799905,0.00002660877,0.00008871299,0.001414075,0.0005779063,0.0009195781,0.01192651,0.00007050801,0.004774593,0.00001228099],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.995864,0.0002241318,0.001129446,0.00003543018,0.000007387568,0.00002456884,0.002189979,0.00002558644,0.0004994138],"genre_scores_gemma":[0.9905182,0.0002138552,0.003099482,0.00005645772,0.000008032286,0.00001839565,0.005516702,0.00002576892,0.0005432016],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.006063533,"threshold_uncertainty_score":0.01205647,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2761073565","doi":"10.1128/msphere.00267-17","title":"Bacterial Lipopolysaccharide Destabilizes Influenza Viruses","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Influenza Virus Research Studies","field":"Medicine","cited_by":61,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; National Institute of Environmental Health Sciences; National Institute of Allergy and Infectious Diseases; Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology","keywords":"Biology; Bacteria; Microbiology; Virus; Influenza A virus; Infectivity; Virology; Lipopolysaccharide; Host (biology); Immune system; Pathogen; Immunology; Ecology","authors":[{"name":"Christopher Bandoro","is_ca":false},{"name":"Jonathan A. Runstadler","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.1516947271484699,"gpt":0.4184706455305301,"spread":0.2667759183820602,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003102616,0.0003404081,0.0001804981,0.0002063282,0.0001587827,0.0003260199,0.0001346294,0.0002876672,0.001175681],"category_scores_gemma":[0.0003624142,0.000107391,0.0003222911,0.00005374956,0.0002475643,0.0002189115,0.0004091119,0.0004310588,0.0003409789],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001571048,"about_ca_system_score_gemma":0.0001550971,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003410935,"about_ca_topic_score_gemma":0.0002383871,"domain_scores_codex":[0.9997855,0.00006742356,0.00001515728,0.00002358178,0.00005328248,0.00005513572],"domain_scores_gemma":[0.9997087,0.00006618221,0.00009806417,0.00003100912,0.00003652977,0.00005943356],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002132729,0.0000545185,0.001583593,0.00004715394,0.00002396263,0.00005616537,0.00002449615,0.0001502263,0.995699,0.00009552439,0.00006120718,0.001990706],"study_design_scores_gemma":[0.00002971091,0.001342164,0.0285156,0.00002713555,0.0000405872,0.0003583569,0.000118475,0.001507075,0.9654048,0.0002922621,0.002350055,0.00001366202],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9964875,0.001354305,0.0009453479,0.0001185588,0.00004480957,0.00001343808,0.00008391304,0.00002013761,0.0009319893],"genre_scores_gemma":[0.9986633,0.0003048812,0.0004359444,0.00006973354,0.0000164979,0.000006988764,0.00009908517,0.000008579201,0.0003950309],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001175681,"threshold_uncertainty_score":0.003933012,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2894966346","doi":"10.1128/msphere.00473-18","title":"Biofilm Formation Drives Transfer of the Conjugative Element ICE <i>Bs1</i> in <i>Bacillus subtilis</i>","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":58,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Sherbrooke","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Biofilm; Bacillus subtilis; Context (archaeology); Bacteria; Horizontal gene transfer; Microbiology; Biology; Extracellular polymeric substance; Multicellular organism; Chemistry; Genetics; Ecology; Gene; Phylogenetics","authors":[{"name":"Frédéric Lécuyer","is_ca":true},{"name":"Jean-Sébastien Bourassa","is_ca":true},{"name":"Martin Gélinas","is_ca":true},{"name":"Vincent Charron‐Lamoureux","is_ca":true},{"name":"Vincent Burrus","is_ca":true},{"name":"Pascale B. Beauregard","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008185504541653364,"gpt":0.2173143843875047,"spread":0.2091288798458514,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001892174,0.0001955428,0.0001673541,0.00008910183,0.0002137599,0.0003292704,0.0001410445,0.0002393673,0.0007209528],"category_scores_gemma":[0.0003127309,0.0001562259,0.0001707851,0.00007201235,0.0001915725,0.0001546894,0.0003625565,0.0004249205,0.0001955328],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002693672,"about_ca_system_score_gemma":0.0002408704,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001737003,"about_ca_topic_score_gemma":0.001924889,"domain_scores_codex":[0.9997975,0.00004571717,0.00001225248,0.00002477817,0.00007246387,0.00004724465],"domain_scores_gemma":[0.999833,0.0000652245,0.0000431305,0.00001000773,0.00001324751,0.0000354054],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00003179964,0.00002158067,0.0003725927,0.00002077602,0.000002187679,0.00003322336,0.00003296419,0.00009357985,0.9986303,0.0001222366,0.00003270121,0.0006062046],"study_design_scores_gemma":[0.00001965419,0.0004205198,0.01163761,0.00001398799,0.0000120119,0.0001804223,0.0002273028,0.004404827,0.9814942,0.0001402707,0.001434658,0.00001457532],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9980615,0.0001656168,0.0008823426,0.00006746641,0.00001350853,0.000006816986,0.00002957402,0.00001410776,0.0007589143],"genre_scores_gemma":[0.9980484,0.0001236203,0.001252207,0.00003369436,0.000003462904,0.000006516358,0.00005798292,0.00001017538,0.0004638669],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001737003,"threshold_uncertainty_score":0.003453791,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2739165387","doi":"10.1128/msphere.00158-17","title":"Evolution of Cost-Free Resistance under Fluctuating Drug Selection in Pseudomonas aeruginosa","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":53,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Agriculture and Agri-Food Canada; Ontario Genomics; University of Ottawa","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Antibiotics; Pseudomonas aeruginosa; Antibiotic resistance; Biology; Experimental evolution; Ciprofloxacin; Drug resistance; Microbiology; Genetics; Bacteria; Gene","authors":[{"name":"Anita H. Melnyk","is_ca":true},{"name":"Nicholas McCloskey","is_ca":true},{"name":"Aaron Hinz","is_ca":true},{"name":"Jeremy R. Dettman","is_ca":true},{"name":"Rees Kassen","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007612953332857272,"gpt":0.2540677615057041,"spread":0.2464548081728468,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003626126,0.0001849293,0.0002722506,0.0001858566,0.0002427158,0.0004874158,0.0003313898,0.0004036479,0.0005907965],"category_scores_gemma":[0.001135309,0.0001397751,0.0001405793,0.0001987889,0.0004531853,0.0003109987,0.0004436659,0.0005424845,0.0000932476],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005467818,"about_ca_system_score_gemma":0.0002723275,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008007545,"about_ca_topic_score_gemma":0.001064666,"domain_scores_codex":[0.9997351,0.0001097251,0.00001600648,0.00003995914,0.00006222176,0.0000370564],"domain_scores_gemma":[0.9994872,0.0002137718,0.0001124519,0.00007289634,0.00004659328,0.00006711287],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.000162561,0.00007265491,0.003794192,0.00003222637,0.00001352745,0.0001086081,0.00007229474,0.002478328,0.9883435,0.0007758187,0.00002781149,0.004118437],"study_design_scores_gemma":[0.0002556351,0.004100384,0.1472872,0.00004927857,0.0001071367,0.001468846,0.0009979452,0.168124,0.6673613,0.006238607,0.003842419,0.0001673321],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9989805,0.00005473397,0.0006984526,0.00004244836,0.000002515021,0.000003111243,0.0000140127,0.000005897596,0.0001983357],"genre_scores_gemma":[0.9988266,0.00007995877,0.0008703228,0.00002458889,0.000002116571,0.00001093505,0.00002364677,0.000006352654,0.0001554671],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008007545,"threshold_uncertainty_score":0.003967226,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2928153265","doi":"10.1128/mspheredirect.00157-19","title":"Marine RNA Virus Quasispecies Are Distributed throughout the Oceans","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":52,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Memorial University of Newfoundland; University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Biology; RNA; Viral quasispecies; RNA virus; Viral evolution; Genome; Nonsynonymous substitution; Virus; Biological dispersal; Marine bacteriophage; Genetics; Evolutionary biology; Gene; Population","authors":[{"name":"Marli Vlok","is_ca":true},{"name":"Andrew S. Lang","is_ca":true},{"name":"Curtis A. Suttle","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00811958421851627,"gpt":0.2341864907481138,"spread":0.2260669065295975,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005085505,0.0001597691,0.0003882789,0.001047163,0.0006643194,0.0008428045,0.0002008158,0.0002553577,0.0009959048],"category_scores_gemma":[0.00101478,0.000192218,0.0002323246,0.0009379262,0.0004787728,0.0006011546,0.000568027,0.0003299507,0.0002710091],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003818375,"about_ca_system_score_gemma":0.0004044921,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00365445,"about_ca_topic_score_gemma":0.007261929,"domain_scores_codex":[0.9994617,0.0000747348,0.00004173096,0.0002083746,0.0001426682,0.00007084838],"domain_scores_gemma":[0.9991549,0.0001893502,0.0003021153,0.00009531528,0.0001770493,0.0000813965],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.000297015,0.00003398848,0.5425303,0.0003852184,0.000271335,0.0001630993,0.001576292,0.0004934014,0.3942368,0.001415578,0.0002860912,0.05831087],"study_design_scores_gemma":[0.000007346217,0.0001781456,0.9724342,0.00007423294,0.00007455796,0.0003189681,0.001436628,0.0007793852,0.01222119,0.001415401,0.01103332,0.00002667891],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9910578,0.003614614,0.002549921,0.00009641544,0.00001566588,0.00001165642,0.0005423579,0.00003631724,0.002075345],"genre_scores_gemma":[0.9952815,0.001259235,0.002177777,0.0000632626,0.00001238792,0.00001402434,0.0006391454,0.00001620195,0.000536512],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00365445,"threshold_uncertainty_score":0.007266343,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3126731077","doi":"10.1128/msphere.00066-21","title":"Extensive Genetic Diversity and Widespread Azole Resistance in Greenhouse Populations of Aspergillus fumigatus in Yunnan, China","year":2021,"lang":"en","type":"article","venue":"mSphere","topic":"Fungal Plant Pathogen Control","field":"Agricultural and Biological Sciences","cited_by":52,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University","funders":"Natural Science Foundation of Hainan Province; National Natural Science Foundation of China","keywords":"Aspergillus fumigatus; Azole; Biology; Voriconazole; Itraconazole; Fungicide; Genotype; Drug resistance; Biotechnology; Veterinary medicine; Agronomy; Microbiology; Gene; Genetics; Medicine; Antifungal","authors":[{"name":"Duanyong Zhou","is_ca":false},{"name":"Greg Korfanty","is_ca":true},{"name":"Meizi Mo","is_ca":false},{"name":"Ruirui Wang","is_ca":false},{"name":"Xiao Li","is_ca":false},{"name":"Haixia Li","is_ca":false},{"name":"Shuoshuo Li","is_ca":false},{"name":"Jinyan Wu","is_ca":false},{"name":"Ke‐Qin Zhang","is_ca":false},{"name":"Ying Zhang","is_ca":false},{"name":"Jianping Xu","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01807886366144716,"gpt":0.1965758021459958,"spread":0.1784969384845486,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003868197,0.0001707116,0.0001883476,0.001228944,0.0004894016,0.0002648609,0.0002481549,0.0001371073,0.0002769582],"category_scores_gemma":[0.0002605238,0.00009653437,0.0001615461,0.0008680401,0.0004112514,0.0001524403,0.0003093619,0.0001266926,0.00002947985],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005967402,"about_ca_system_score_gemma":0.0006523277,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0367193,"about_ca_topic_score_gemma":0.07229637,"domain_scores_codex":[0.9997465,0.00003618238,0.00002530866,0.00009432444,0.00005547508,0.00004224618],"domain_scores_gemma":[0.9997427,0.0000468653,0.00007578807,0.00002135015,0.0000522874,0.00006091792],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001399956,0.00006465449,0.8978066,0.00007137092,0.00009932941,0.0004523824,0.002516718,0.0003643536,0.08242965,0.0002152987,0.00008069674,0.01575884],"study_design_scores_gemma":[0.000002974465,0.00002820135,0.9987366,0.00000445061,0.000008599081,0.00008686486,0.0004712743,0.0001389291,0.0003584116,0.00003417092,0.0001258432,0.000003668479],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9996773,0.00007690652,0.00005718358,0.000009736633,8.375683e-7,0.000003466724,0.00003825317,9.891401e-7,0.0001353302],"genre_scores_gemma":[0.9996188,0.00005867959,0.00008541373,0.000008633393,0.000001541928,0.000003709686,0.0001008895,5.092825e-7,0.0001219099],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0367193,"threshold_uncertainty_score":0.0730111,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2290003209","doi":"10.1128/msphere.00080-15","title":"The Zinc Finger Protein Mig1 Regulates Mitochondrial Function and Azole Drug Susceptibility in the Pathogenic Fungus Cryptococcus neoformans","year":2016,"lang":"en","type":"article","venue":"mSphere","topic":"Fungal Infections and Studies","field":"Medicine","cited_by":51,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health; Burroughs Wellcome Fund","keywords":"Cryptococcus neoformans; Biology; Mitochondrion; Saccharomyces cerevisiae; Microbiology; Antifungal drug; Cell biology; Genetics; Gene; Candida albicans","authors":[{"name":"Mélissa Caza","is_ca":true},{"name":"Guanggan Hu","is_ca":true},{"name":"Michael Price","is_ca":false},{"name":"John R. Perfect","is_ca":false},{"name":"James W. Kronstad","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.009019558515006458,"gpt":0.2287840070364029,"spread":0.2197644485213965,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00007188364,0.0002624237,0.0001427936,0.0002676428,0.0001513522,0.0002056361,0.0001233128,0.0001737337,0.0005284952],"category_scores_gemma":[0.00009387668,0.00008928606,0.0001261135,0.000118568,0.0001615344,0.0000709601,0.000199166,0.0002292635,0.0001680774],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004523971,"about_ca_system_score_gemma":0.0001655642,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001921394,"about_ca_topic_score_gemma":0.002279076,"domain_scores_codex":[0.9999065,0.000009470494,0.000006135686,0.00001761681,0.0000245798,0.0000356942],"domain_scores_gemma":[0.9999281,0.000007116092,0.00002613757,0.000004699913,0.00001046618,0.00002342094],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001542558,0.000024949,0.00326683,0.00001616592,0.00000437582,0.000136531,0.00001878383,0.0001066295,0.9945314,0.00004349466,0.00005030267,0.001646227],"study_design_scores_gemma":[0.00003204938,0.0002674507,0.3330552,0.00001398138,0.00003830296,0.001051294,0.0002097086,0.005015763,0.6577675,0.0001444993,0.002386506,0.00001770975],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983973,0.0004898087,0.0003906289,0.00004157931,0.000004733249,0.000007036075,0.0001699277,0.00004132174,0.0004576672],"genre_scores_gemma":[0.9987122,0.0001513642,0.000251724,0.00002278099,0.000001770591,0.000006239307,0.0001329283,0.000004735428,0.000716191],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001921394,"threshold_uncertainty_score":0.003820479,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2902747809","doi":"10.1128/msphere.00525-18","title":"Tetrasodium EDTA Is Effective at Eradicating Biofilms Formed by Clinically Relevant Microorganisms from Patients’ Central Venous Catheters","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Central Venous Catheters and Hemodialysis","field":"Health Professions","cited_by":51,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Royal University Hospital; University of Saskatchewan","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Biofilm; Medicine; Antimicrobial; Antibiotics; Intensive care medicine; Colonization; Microbiology; Bacteria; Biology","authors":[{"name":"Fangning Liu","is_ca":false},{"name":"Satyender Hansra","is_ca":false},{"name":"Gordon Crockford","is_ca":false},{"name":"Wolfgang Köster","is_ca":true},{"name":"Brenda Allan","is_ca":false},{"name":"Joseph M. Blondeau","is_ca":true},{"name":"Chantal Lainesse","is_ca":false},{"name":"Aaron P. White","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01321012685354717,"gpt":0.3033427538501235,"spread":0.2901326269965764,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006144599,0.0002717556,0.000450059,0.0004779541,0.0005466223,0.0006214769,0.0003812294,0.0004819836,0.002640078],"category_scores_gemma":[0.0009586539,0.00015506,0.0003721417,0.0003660778,0.0002847565,0.0003423543,0.0002702335,0.000475945,0.0003248233],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003287692,"about_ca_system_score_gemma":0.0008776251,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.009898826,"about_ca_topic_score_gemma":0.03514698,"domain_scores_codex":[0.9994418,0.0001171034,0.00007046443,0.00006663064,0.0002485695,0.0000554761],"domain_scores_gemma":[0.9989906,0.0003028162,0.0002009669,0.00005854922,0.00031444,0.0001326589],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001397538,0.0009365961,0.008762971,0.001123911,0.0001170992,0.0003201101,0.0006246308,0.0001520347,0.8708683,0.0001904826,0.001497627,0.1140087],"study_design_scores_gemma":[0.0001969539,0.00928536,0.08862538,0.0002430466,0.0002896281,0.002100861,0.0008077872,0.0006891513,0.8487738,0.000115575,0.04881617,0.0000562577],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9582645,0.02905211,0.004610184,0.001844539,0.0004340797,0.0001849877,0.0002827457,0.0001538362,0.005172925],"genre_scores_gemma":[0.9556953,0.01301268,0.02158001,0.0005545805,0.0001267992,0.00003652201,0.0004225529,0.00005392129,0.008517673],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.009898826,"threshold_uncertainty_score":0.01968241,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3037647457","doi":"10.1128/msphere.00480-20","title":"<i>Candida albicans</i> Genetic Background Influences Mean and Heterogeneity of Drug Responses and Genome Stability during Evolution in Fluconazole","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":50,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Canadian Institutes of Health Research","keywords":"Biology; Candida albicans; Drug resistance; Antifungal drug; Fluconazole; Adaptation (eye); Drug; Genetic Fitness; Genetics; Genome; Corpus albicans; Genetic variability; Evolutionary biology; Antifungal; Microbiology; Genotype; Gene; Pharmacology","authors":[{"name":"Aleeza C. Gerstein","is_ca":false},{"name":"Judith Berman","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01086180925966321,"gpt":0.2324822914192316,"spread":0.2216204821595684,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002676292,0.0001797385,0.0001576971,0.0003815748,0.0002213161,0.0005411982,0.0002119429,0.0002708022,0.001167831],"category_scores_gemma":[0.0007567126,0.0001110943,0.0001280586,0.0003215714,0.0002165899,0.0002200169,0.0003954943,0.0002999693,0.0001540701],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003943146,"about_ca_system_score_gemma":0.0002111871,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0021789,"about_ca_topic_score_gemma":0.004251693,"domain_scores_codex":[0.999791,0.00005534739,0.00001315475,0.00005148632,0.00005105487,0.00003807196],"domain_scores_gemma":[0.9996716,0.00009778466,0.0001024804,0.00002362134,0.00004258245,0.00006199179],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0003302237,0.0000492805,0.02415527,0.00004195077,0.00004666064,0.0001239027,0.0001064435,0.001008383,0.9625587,0.0004228776,0.0002816601,0.01087454],"study_design_scores_gemma":[0.00001684025,0.0005537214,0.7938387,0.0000271069,0.00009184727,0.0007934575,0.0003908299,0.01072148,0.188225,0.0005066837,0.004755316,0.00007892038],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9979639,0.0002727125,0.0005039425,0.00005831611,0.000005654792,0.00000363132,0.0002093555,0.00002748243,0.0009549082],"genre_scores_gemma":[0.9988544,0.0001146096,0.0003419883,0.00003841202,0.000003290291,0.000004541844,0.0001825532,0.00001908333,0.0004410603],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0021789,"threshold_uncertainty_score":0.004332423,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3162611126","doi":"10.1128/msphere.00308-21","title":"Covariation of the Fecal Microbiome with Diet in Nonpasserine Birds","year":2021,"lang":"en","type":"article","venue":"mSphere","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":49,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Diabetes Canada; University of Toronto","funders":"","keywords":"Biology; Microbiome; Fusobacteria; Clostridia; Metagenomics; Feces; Zoology; Clostridiales; Proteobacteria; Host (biology); Gut microbiome; Clostridium; Ecology; 16S ribosomal RNA; Genetics; Bacteria; Gene","authors":[{"name":"Kangpeng Xiao","is_ca":false},{"name":"Yutan Fan","is_ca":false},{"name":"Zhipeng Zhang","is_ca":false},{"name":"Xuejuan Shen","is_ca":false},{"name":"Xiaobing Li","is_ca":false},{"name":"Xianghui Liang","is_ca":false},{"name":"Ran Bi","is_ca":false},{"name":"Yajiang Wu","is_ca":false},{"name":"Junqiong Zhai","is_ca":false},{"name":"Junwei Dai","is_ca":false},{"name":"David M. Irwin","is_ca":true},{"name":"Chen Wu","is_ca":false},{"name":"Yongyi Shen","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00461512259952226,"gpt":0.2206229997675689,"spread":0.2160078771680466,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001641712,0.0001362516,0.0002488056,0.0003471586,0.0002803783,0.0003395731,0.00008597064,0.00020798,0.001079667],"category_scores_gemma":[0.0004796471,0.0001261926,0.000110118,0.0002933256,0.0002638021,0.000238092,0.0002424882,0.000154697,0.0001162924],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001608443,"about_ca_system_score_gemma":0.0001494731,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003786633,"about_ca_topic_score_gemma":0.01249425,"domain_scores_codex":[0.9998202,0.00003249464,0.000008834726,0.00009030527,0.00002247833,0.00002576524],"domain_scores_gemma":[0.9996684,0.00005181603,0.0001358161,0.00003205105,0.00004423546,0.00006773363],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003404581,0.00003203444,0.8295745,0.00006598904,0.0001461814,0.000162028,0.0004845877,0.00009670528,0.1607186,0.00006967074,0.00009664415,0.008212658],"study_design_scores_gemma":[3.582092e-7,0.00002618164,0.9992747,0.000001290138,0.000007326311,0.00005166001,0.00006712312,0.00007589251,0.0004051731,0.00001480787,0.00007423499,0.000001310222],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9991716,0.0001768533,0.0003282411,0.00001312729,0.000002166108,0.000001656747,0.0001055157,0.000003651507,0.0001971797],"genre_scores_gemma":[0.9992313,0.00004329121,0.0003726206,0.00001627117,0.00000189324,0.000002581561,0.0000959293,0.000003594895,0.0002323521],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003786633,"threshold_uncertainty_score":0.00752914,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2903368355","doi":"10.1128/msphere.00564-18","title":"Vitamin E Increases Antimicrobial Sensitivity by Inhibiting Bacterial Lipocalin Antibiotic Binding","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Vitamin C and Antioxidants Research","field":"Nursing","cited_by":49,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Western University","funders":"Queen's University; Queen's University Belfast; Cystic Fibrosis Canada","keywords":"Antimicrobial; Lipocalin; Antibiotics; Sensitivity (control systems); Microbiology; Chemistry; Antibiotic resistance; Biology; Biochemistry","authors":[{"name":"Marwa Naguib","is_ca":false},{"name":"Miguel A. Valvano","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01262250324420276,"gpt":0.2684516199497186,"spread":0.2558291167055158,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001706692,0.0002372463,0.0002498002,0.0003462508,0.0001373455,0.0002893856,0.0001915114,0.0004616679,0.001976883],"category_scores_gemma":[0.000410596,0.0000809336,0.0001872883,0.0001205089,0.0003059612,0.0002289223,0.0003114197,0.0003479124,0.0001930555],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00013952,"about_ca_system_score_gemma":0.0001931844,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003512954,"about_ca_topic_score_gemma":0.0005019883,"domain_scores_codex":[0.999843,0.00005526192,0.00001494997,0.00002765,0.00002585878,0.00003328831],"domain_scores_gemma":[0.999752,0.00008114293,0.00006018454,0.00002574644,0.00003496577,0.00004604991],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001045918,0.000135601,0.0005079291,0.0001464416,0.00001812887,0.00005146331,0.00003507264,0.00003831646,0.9917148,0.0001269933,0.00005804204,0.006121362],"study_design_scores_gemma":[0.00007800059,0.002409424,0.003746922,0.00003102732,0.00004709404,0.0002012831,0.00006619887,0.0002391158,0.9874862,0.000174723,0.005511273,0.000008655334],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9858307,0.008394353,0.003007589,0.0003942608,0.00007558791,0.0000464219,0.0001080655,0.00008978957,0.002053254],"genre_scores_gemma":[0.9931398,0.002285073,0.002453903,0.0000892436,0.00001819994,0.0000155758,0.00007525837,0.00001022322,0.001912626],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001976883,"threshold_uncertainty_score":0.006613314,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2606931784","doi":"10.1128/msphere.00120-17","title":"Discovery of a Novel Antifungal Agent in the Pathogen Box","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":49,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; Deutsche Forschungsgemeinschaft; University of British Columbia; Medicines for Malaria Venture; Government of Canada","keywords":"Cryptococcus neoformans; Candida albicans; Antifungal; Human pathogen; Pathogen; Fungal pathogen; Potency; Microbiology; Biology; Cryptococcus; Human immunodeficiency virus (HIV); Antifungal drugs; Virology; Bacteria; In vitro","authors":[{"name":"François L. Mayer","is_ca":true},{"name":"James W. Kronstad","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.04377501810748016,"gpt":0.3190852887898737,"spread":0.2753102706823936,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002054895,0.0003733887,0.00048046,0.0003593594,0.0001689513,0.000424011,0.0003172017,0.0005279034,0.002104518],"category_scores_gemma":[0.0001312633,0.0001230864,0.000230032,0.000239789,0.0001840996,0.000309734,0.0004390991,0.0007510401,0.0007279141],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000172919,"about_ca_system_score_gemma":0.0004404158,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003488283,"about_ca_topic_score_gemma":0.0009183931,"domain_scores_codex":[0.9999245,0.000012977,0.000004855945,0.00001475592,0.00002203918,0.00002083048],"domain_scores_gemma":[0.999952,0.000007837562,0.000008492418,0.000003622951,0.00001172972,0.00001642956],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0003945431,0.0003208738,0.000652012,0.0004348977,0.00003324581,0.0006009354,0.00005799725,0.0008924215,0.912909,0.002533881,0.001879782,0.07929049],"study_design_scores_gemma":[0.0004493051,0.005944604,0.002906105,0.0001578386,0.0001098144,0.001631427,0.00007432835,0.002849551,0.8976441,0.0009144755,0.08727757,0.00004093581],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9093848,0.04441157,0.02028774,0.001898038,0.0004602715,0.0006453071,0.00211518,0.0005182998,0.02027876],"genre_scores_gemma":[0.9295942,0.02178072,0.02970445,0.00132719,0.0001114065,0.0001603533,0.002333006,0.00004061661,0.01494812],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002104518,"threshold_uncertainty_score":0.007040322,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2784013983","doi":"10.1128/msphere.00499-17","title":"Dating the Cryptococcus gattii Dispersal to the North American Pacific Northwest","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Fungal Infections and Studies","field":"Medicine","cited_by":47,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Agriculture and Agri-Food Canada; University of Prince Edward Island; Institut National de Santé Publique du Québec","funders":"National Institute of Allergy and Infectious Diseases; Centers for Disease Control and Prevention; National Institutes of Health","keywords":"Biological dispersal; Cryptococcus gattii; Enzootic; Biology; Geography; Panama; Ecology; Zoology; Cryptococcus; Demography; Population; Genetics","authors":[{"name":"Chandler C. Roe","is_ca":false},{"name":"Jolene R. Bowers","is_ca":false},{"name":"Hanna N. Oltean","is_ca":false},{"name":"Emilio DeBess","is_ca":false},{"name":"Philippe J. Dufresne","is_ca":true},{"name":"Scott McBurney","is_ca":true},{"name":"David P. Overy","is_ca":true},{"name":"Bodo Wanke","is_ca":false},{"name":"Colleen Lysén","is_ca":false},{"name":"Tom Chiller","is_ca":false},{"name":"Wieland Meyer","is_ca":false},{"name":"George R. Thompson","is_ca":false},{"name":"Shawn R. Lockhart","is_ca":false},{"name":"Crystal M. Hepp","is_ca":false},{"name":"David M. Engelthaler","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01458023237073771,"gpt":0.274241553494344,"spread":0.2596613211236063,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003520773,0.0001982634,0.0001509625,0.0007367083,0.0008302317,0.0004491103,0.0001746332,0.0002043418,0.0006388802],"category_scores_gemma":[0.0008697581,0.000119949,0.00008260863,0.0009221173,0.0004617669,0.000332668,0.0003660161,0.0004770485,0.00008800072],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004168649,"about_ca_system_score_gemma":0.0005643742,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.03617226,"about_ca_topic_score_gemma":0.09183521,"domain_scores_codex":[0.9998623,0.0000197749,0.000006391795,0.00005841679,0.00002749545,0.00002552705],"domain_scores_gemma":[0.9995875,0.0000769112,0.0001820221,0.0000227847,0.00008085013,0.00004998172],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0000860822,0.00002196858,0.9433639,0.00005262952,0.00002405308,0.0005366862,0.002050007,0.0002718164,0.01732616,0.000354203,0.0001126126,0.03579996],"study_design_scores_gemma":[0.000002222847,0.00004642393,0.9914461,0.00004604623,0.00002139238,0.0007441739,0.002128522,0.0003686058,0.002716418,0.0003135659,0.002160071,0.000006489668],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9963865,0.0005609467,0.001223796,0.00008650152,0.000006443453,0.00001203289,0.0001763354,0.000004869761,0.001542556],"genre_scores_gemma":[0.9970887,0.0006743133,0.001809709,0.00003631945,0.000004081805,0.000004193398,0.000110118,0.000002675967,0.0002699154],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03617226,"threshold_uncertainty_score":0.07192343,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2801652714","doi":"10.1128/msphere.00125-18","title":"Iron Acquisition and Siderophore Release by Carbapenem-Resistant Sequence Type 258 Klebsiella pneumoniae","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":46,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Institut National de la Recherche Scientifique","funders":"National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; U.S. Department of Health and Human Services","keywords":"Klebsiella pneumoniae; Siderophore; Microbiology; Sequence (biology); Biology; Bacteria; Escherichia coli; Gene; Genetics","authors":[{"name":"Victoria Holden","is_ca":false},{"name":"Meredith S. Wright","is_ca":false},{"name":"Sébastien Houle","is_ca":true},{"name":"Abigail Collingwood","is_ca":false},{"name":"Charles M. Dozois","is_ca":true},{"name":"Mark D. Adams","is_ca":false},{"name":"Michael A. Bachman","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008110519485203652,"gpt":0.2431592075213136,"spread":0.2350486880361099,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001675313,0.0002498985,0.0004024058,0.0001822267,0.0001724543,0.0004301297,0.0001860446,0.0003467371,0.0008998874],"category_scores_gemma":[0.0004145605,0.0002001027,0.0002862329,0.0001912658,0.000131973,0.0002181106,0.0002072101,0.0003683791,0.0004257833],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000255165,"about_ca_system_score_gemma":0.0001788425,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002261322,"about_ca_topic_score_gemma":0.002194824,"domain_scores_codex":[0.9996511,0.00005229687,0.00004083767,0.00005469742,0.0001064161,0.00009466779],"domain_scores_gemma":[0.9997957,0.00004525614,0.00004722047,0.000030475,0.00004568453,0.00003568153],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002795593,0.00007015381,0.002881667,0.00001852172,0.000007618934,0.0001331675,0.00005248648,0.00006240061,0.9955648,0.00002183256,0.00003565517,0.0008720307],"study_design_scores_gemma":[0.00005620014,0.002244398,0.1621119,0.00001394813,0.00003327821,0.001792248,0.0006271552,0.002308452,0.8294524,0.00007225192,0.001243402,0.00004439484],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9995255,0.00008672887,0.00009801862,0.00001251181,0.000003318107,0.000004289246,0.0000973179,0.000003557006,0.0001687244],"genre_scores_gemma":[0.9979891,0.00009062603,0.000432863,0.00002073941,0.000003207638,0.000008921747,0.000466292,0.000007567976,0.0009806869],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002261322,"threshold_uncertainty_score":0.004496336,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2976837560","doi":"10.1128/msphere.00433-19","title":"Unknown Risk on the Farm: Does Agricultural Use of Ionophores Contribute to the Burden of Antimicrobial Resistance?","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"Pharmaceutical and Antibiotic Environmental Impacts","field":"Environmental Science","cited_by":45,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Carleton University","funders":"Canadian Institutes of Health Research; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Antimicrobial; Agriculture; Antibiotic resistance; Biotechnology; Business; Environmental health; Risk analysis (engineering); Agricultural science; Environmental science; Chemistry; Medicine; Biology; Microbiology; Antibiotics; Biochemistry; Ecology","authors":[{"name":"Alex Wong","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01248255639756498,"gpt":0.2257358511953268,"spread":0.2132532947977618,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.007393892,0.0005464941,0.000914175,0.0008962858,0.0006535564,0.003001778,0.001158311,0.00434009,0.007562468],"category_scores_gemma":[0.02736448,0.0002640155,0.001145267,0.0007650498,0.002939835,0.004488389,0.001918394,0.003661544,0.001261862],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00122206,"about_ca_system_score_gemma":0.003277995,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005629782,"about_ca_topic_score_gemma":0.006578653,"domain_scores_codex":[0.9962015,0.001797492,0.0002639053,0.0007329887,0.0006811678,0.0003230078],"domain_scores_gemma":[0.9801199,0.01145351,0.004973304,0.0006974305,0.002217509,0.0005384475],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"observational","study_design_scores_codex":[0.002069381,0.0004541233,0.3779472,0.01043457,0.00350112,0.003527929,0.00504896,0.002074392,0.002871038,0.07762174,0.06169808,0.4527515],"study_design_scores_gemma":[0.0001742625,0.00183517,0.2436951,0.02135828,0.004408176,0.006328382,0.02020812,0.004330166,0.005130562,0.2927181,0.3994487,0.0003650385],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"commentary","genre_gemma":"empirical","genre_scores_codex":[0.1560793,0.1772137,0.01959375,0.6050608,0.004935819,0.0001744852,0.003505662,0.0001159931,0.03332044],"genre_scores_gemma":[0.7447847,0.1505374,0.005648855,0.08597875,0.006262123,0.0001254686,0.001012484,0.00007431449,0.005575818],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.007562468,"threshold_uncertainty_score":0.03910315,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2969520863","doi":"10.1128/msphere.00408-19","title":"Single-Strand Annealing Plays a Major Role in Double-Strand DNA Break Repair following CRISPR-Cas9 Cleavage in <i>Leishmania</i>","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":45,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University","funders":"Canadian Institutes of Health Research; Government of Canada","keywords":"CRISPR; Biology; Genome editing; DNA repair; Cas9; DNA; Non-homologous end joining; Genetics; Gene; Guide RNA; Computational biology; Cell biology","authors":[{"name":"Wen‐Wei Zhang","is_ca":true},{"name":"Greg Matlashewski","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.006169463580340442,"gpt":0.2483449875310197,"spread":0.2421755239506793,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002915057,0.0002859004,0.0003552401,0.0001456338,0.0002607082,0.0005359381,0.0002510269,0.0004374178,0.001811599],"category_scores_gemma":[0.0003376329,0.0003037647,0.0003479696,0.0001271393,0.0002913264,0.0002957289,0.0003311154,0.0006664911,0.0009493461],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002824277,"about_ca_system_score_gemma":0.0003255491,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006968281,"about_ca_topic_score_gemma":0.001190776,"domain_scores_codex":[0.9996859,0.00004320245,0.00003308273,0.00009808297,0.0000776619,0.00006200001],"domain_scores_gemma":[0.999733,0.00006269164,0.00008081195,0.00004530927,0.00003538243,0.00004273275],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00003437349,0.00000791525,0.0001731704,0.00005068928,0.000004689223,0.00005233909,0.00002090428,0.0000784662,0.9977672,0.0001674761,0.00004236205,0.0016005],"study_design_scores_gemma":[0.000001377338,0.00003517645,0.0008235162,0.0000044192,0.000004924791,0.0001300993,0.00001095982,0.0003912429,0.9965194,0.00003807473,0.002036197,0.000004619761],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9272969,0.002380155,0.06313206,0.0002364686,0.0000992336,0.00006548315,0.0004439735,0.0006948136,0.005650829],"genre_scores_gemma":[0.9825022,0.0005338922,0.01262799,0.00007369887,0.000006385228,0.00002597999,0.0004113722,0.0001329525,0.003685416],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001811599,"threshold_uncertainty_score":0.006060362,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3011896977","doi":"10.1128/msphere.00143-20","title":"Nonclonal Emergence of Colistin Resistance Associated with Mutations in the BasRS Two-Component System in Escherichia coli Bloodstream Isolates","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":45,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"Biotechnology and Biological Sciences Research Council; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; UK Research and Innovation; Queen's University Belfast; Directorate for Biological Sciences; Royal Society; Queen's University; Department for Employment and Learning, Northern Ireland","keywords":"Colistin; Escherichia coli; Biology; Microbiology; Lipid A; Plasmid; Bacteria; MCR-1; Drug resistance; Multiple drug resistance; Enterobacteriaceae; Gene; Genetics; Antibiotics","authors":[{"name":"Axel B. Janssen","is_ca":false},{"name":"Toby Leigh Bartholomew","is_ca":false},{"name":"Natalia P. Marciszewska","is_ca":false},{"name":"Marc J. M. Bonten","is_ca":false},{"name":"Rob J. L. Willems","is_ca":false},{"name":"José A. Bengoechea","is_ca":false},{"name":"Willem van Schaik","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01050016315416541,"gpt":0.2317974983719724,"spread":0.221297335217807,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001633262,0.000278813,0.00029639,0.0006999333,0.0001924588,0.0003415258,0.0002108581,0.0003691871,0.000829722],"category_scores_gemma":[0.0008484918,0.0001534921,0.0002388658,0.0005024361,0.0002934168,0.0001170249,0.0002590575,0.0003793909,0.0002297046],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001366975,"about_ca_system_score_gemma":0.0001505479,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007275143,"about_ca_topic_score_gemma":0.0008161219,"domain_scores_codex":[0.9996032,0.00006703341,0.00005514939,0.00009614188,0.0001135344,0.00006493898],"domain_scores_gemma":[0.999353,0.0001821149,0.0001804879,0.00009368571,0.0001060898,0.00008457965],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0002749038,0.0001199507,0.04251455,0.00004888398,0.00003664357,0.001254896,0.0001352778,0.00009341864,0.9517065,0.00009353792,0.00004001149,0.003681538],"study_design_scores_gemma":[0.00002773298,0.001314258,0.4500314,0.00002393102,0.0001459869,0.02040252,0.0006228729,0.00149439,0.5243053,0.0001417042,0.001457465,0.00003237553],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9989265,0.00009702575,0.0005375271,0.00001909687,0.00000362524,0.00001051207,0.0001183715,0.00001154219,0.0002759434],"genre_scores_gemma":[0.9991348,0.00004918497,0.0004459407,0.00001612385,0.000002438454,0.000005696392,0.0001767994,0.000005803683,0.0001632729],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.000829722,"threshold_uncertainty_score":0.002775729,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2971651304","doi":"10.1128/msphere.00439-19","title":"Potential Role of Extracellular ATP Released by Bacteria in Bladder Infection and Contractility","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"Urinary Bladder and Prostate Research","field":"Medicine","cited_by":44,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"St. Joseph's Hospital; Lawson Health Research Institute; Western University","funders":"Kimberly-Clark","keywords":"Contractility; Extracellular; Bacteria; Cell biology; Microbiology; Chemistry; Biology; Endocrinology","authors":[{"name":"Behnam Abbasian","is_ca":true},{"name":"Aidan Shair","is_ca":true},{"name":"David B. O’Gorman","is_ca":true},{"name":"Ana M. Pena-Diaz","is_ca":true},{"name":"Liam Brennan","is_ca":true},{"name":"Kathleen Engelbrecht","is_ca":false},{"name":"David W. Koenig","is_ca":false},{"name":"Gregor Reid","is_ca":true},{"name":"Jeremy P. Burton","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005090129901619799,"gpt":0.2437752996931089,"spread":0.2386851697914891,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001137534,0.0003555633,0.0007397065,0.000609709,0.000508782,0.001388486,0.0007346163,0.001368685,0.004051922],"category_scores_gemma":[0.001945919,0.0002761216,0.0004265294,0.0002395157,0.001049543,0.001060593,0.001145854,0.0007929663,0.0003876058],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004050267,"about_ca_system_score_gemma":0.0006011362,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005454217,"about_ca_topic_score_gemma":0.000544542,"domain_scores_codex":[0.9993665,0.0003015015,0.00004339876,0.0000534501,0.00008651731,0.0001487822],"domain_scores_gemma":[0.998727,0.0005231313,0.0002357326,0.00007644107,0.0001414987,0.0002962343],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.008284204,0.001304307,0.04227746,0.006782372,0.0004919698,0.01278205,0.002472985,0.00189274,0.7308179,0.02261485,0.004036771,0.1662425],"study_design_scores_gemma":[0.0007204587,0.01735018,0.5290815,0.00356869,0.0005948472,0.01426666,0.01126214,0.01488881,0.3161934,0.03542389,0.05630274,0.0003466931],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8063534,0.1556203,0.01174214,0.009215389,0.001007285,0.000204366,0.0004510183,0.0001369637,0.01526903],"genre_scores_gemma":[0.978299,0.01513053,0.00251251,0.0006058136,0.0003442009,0.0001162636,0.0001174561,0.00001172749,0.002862513],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004051922,"threshold_uncertainty_score":0.01355505,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2790323868","doi":"10.1128/msphere.00017-18","title":"Air-Dried Brown Seaweed, <i>Ascophyllum nodosum</i> , Alters the Rumen Microbiome in a Manner That Changes Rumen Fermentation Profiles and Lowers the Prevalence of Foodborne Pathogens","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Ruminant Nutrition and Digestive Physiology","field":"Agricultural and Biological Sciences","cited_by":42,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Acadian Seaplants (Canada); Agriculture Food and Rural Development; Agriculture and Agri-Food Canada; University of Alberta","funders":"","keywords":"Rumen; Ascophyllum; Biology; Fermentation; Feces; Population; Microbiome; Food science; Butyrate; Microbiology; Animal science; Botany; Algae","authors":[{"name":"Mi Zhou","is_ca":true},{"name":"Martin Hünerberg","is_ca":true},{"name":"Yanhong Chen","is_ca":true},{"name":"Tim Reuter","is_ca":true},{"name":"Tim A. McAllister","is_ca":true},{"name":"Franklin Evans","is_ca":true},{"name":"Alan T. Critchley","is_ca":true},{"name":"Le Luo Guan","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01915953920113603,"gpt":0.2205727151550127,"spread":0.2014131759538767,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001373228,0.0002499948,0.0001736348,0.0001482696,0.0001599513,0.0003349348,0.0001087513,0.000179471,0.0008411413],"category_scores_gemma":[0.0001074553,0.00006872904,0.0002007209,0.0001176899,0.0001823296,0.0001798398,0.0002110259,0.0002572518,0.0001356388],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000185648,"about_ca_system_score_gemma":0.0001764648,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009663058,"about_ca_topic_score_gemma":0.002123876,"domain_scores_codex":[0.9999219,0.00001517614,0.000006445659,0.00002019037,0.00002142558,0.00001478098],"domain_scores_gemma":[0.9998937,0.00001357539,0.0000432045,0.000008432415,0.00001192574,0.00002927341],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0002327032,0.00003354138,0.0007738617,0.00003713124,0.000009691762,0.00002172588,0.000007961573,0.00002468589,0.9974312,0.00001670219,0.00001356499,0.001397158],"study_design_scores_gemma":[0.00002165493,0.002957245,0.03552424,0.00001903358,0.00007288402,0.0001789601,0.0001621765,0.0005008832,0.9577539,0.00005180533,0.002747346,0.000009884214],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988506,0.0002417802,0.0003989776,0.00002336914,0.00001292889,0.000007899067,0.00008774414,0.00001294862,0.0003636082],"genre_scores_gemma":[0.9971468,0.0002969076,0.001368342,0.00005711765,0.000005639299,0.000007366144,0.000176114,0.00000882657,0.0009330151],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009663058,"threshold_uncertainty_score":0.002813876,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3017001125","doi":"10.1128/msphere.00056-20","title":"Emergence of a Novel Salmonella enterica Serotype Reading Clonal Group Is Linked to Its Expansion in Commercial Turkey Production, Resulting in Unanticipated Human Illness in North America","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":41,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Public Health Agency of Canada","funders":"","keywords":"Serotype; Salmonella enterica; Outbreak; Salmonella; Virology; Microbiology; Biology; Bacteria; Genetics","authors":[{"name":"Elizabeth A. Miller","is_ca":false},{"name":"Ehud Elnekave","is_ca":false},{"name":"Cristian Flores-Figueroa","is_ca":false},{"name":"Abigail J. Johnson","is_ca":false},{"name":"Ashley Kearney","is_ca":true},{"name":"Jeannette Muñoz-Aguayo","is_ca":false},{"name":"Kaitlin A. Tagg","is_ca":false},{"name":"Lorelee Tschetter","is_ca":true},{"name":"Bonnie Weber","is_ca":false},{"name":"Céline Nadon","is_ca":true},{"name":"Dave Boxrud","is_ca":false},{"name":"Randall S. Singer","is_ca":false},{"name":"Jason P. Folster","is_ca":false},{"name":"Timothy J. Johnson","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.07408533433080187,"gpt":0.2881407727046906,"spread":0.2140554383738887,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002559342,0.0001930776,0.0001070125,0.0007256303,0.0002967612,0.0003892352,0.0001581773,0.0002580642,0.0009772843],"category_scores_gemma":[0.0003210387,0.0001171235,0.0001392887,0.0005087701,0.0002719567,0.0001776423,0.0002171523,0.0003058302,0.00009847261],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000445127,"about_ca_system_score_gemma":0.0003581209,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.007574352,"about_ca_topic_score_gemma":0.01201136,"domain_scores_codex":[0.9998307,0.00001714794,0.00001003038,0.00005912895,0.00004295168,0.00004005331],"domain_scores_gemma":[0.9995602,0.00005452673,0.0002033911,0.00002933115,0.00007116979,0.00008137649],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0005012914,0.0001485332,0.833084,0.00007127443,0.00004888236,0.001550188,0.0006494982,0.0002319263,0.1385497,0.0001980844,0.0005560676,0.02441062],"study_design_scores_gemma":[0.0000034918,0.0002156474,0.9933522,0.000008659754,0.00001472283,0.0008219442,0.0004938365,0.0002402774,0.003937312,0.00003527834,0.0008722831,0.000004418678],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990018,0.00009799669,0.0002308304,0.00003311221,0.000004230771,0.00000923651,0.0001076183,0.000008932027,0.0005062928],"genre_scores_gemma":[0.9988538,0.00008696956,0.0004518387,0.00002544723,0.000004785566,0.000003223026,0.000259461,0.000001619091,0.0003127951],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.007574352,"threshold_uncertainty_score":0.01506054,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3006825747","doi":"10.1128/msphere.00913-19","title":"Metabolic Reprogramming in the Opportunistic Yeast Candida albicans in Response to Hypoxia","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":40,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université Laval","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research; Government of Canada; Fondation CHU de Québec; Centre Hospitalier Universitaire de Québec; Natural Sciences and Engineering Research Council of Canada","keywords":"Lipidome; Metabolome; Candida albicans; Biology; Metabolomics; Ergosterol; Biochemistry; Metabolic pathway; Pentose phosphate pathway; Yeast; Cell biology; Microbiology; Lipidomics; Metabolism; Glycolysis; Bioinformatics","authors":[{"name":"Anaïs Burgain","is_ca":true},{"name":"Faïza Tebbji","is_ca":true},{"name":"Inès Khemiri","is_ca":true},{"name":"Adnane Sellam","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.04365688164241893,"gpt":0.3009801725422692,"spread":0.2573232908998502,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0000630526,0.0001844447,0.0001916159,0.0002811334,0.0002807177,0.0003952358,0.0001162355,0.0002195986,0.0008162759],"category_scores_gemma":[0.00009405051,0.00006808195,0.0002496287,0.0003351184,0.000121795,0.0001518574,0.0002923532,0.0003572832,0.0001637252],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001865572,"about_ca_system_score_gemma":0.0002591726,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001610118,"about_ca_topic_score_gemma":0.002001995,"domain_scores_codex":[0.9999098,0.00001045822,0.000005154222,0.00002321105,0.00002761944,0.00002376412],"domain_scores_gemma":[0.9999603,0.000004839336,0.000008598941,0.000004290703,0.00001220532,0.000009858847],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001759238,0.00002121855,0.001083759,0.00006032112,0.000007631011,0.0002340231,0.00003940194,0.000224359,0.9938513,0.0001899703,0.0001913708,0.003920821],"study_design_scores_gemma":[0.00002138892,0.000462299,0.08652173,0.00006060539,0.00005965066,0.001300708,0.0007093101,0.004504627,0.8904909,0.001139181,0.01468397,0.00004572816],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9865324,0.00376087,0.002676033,0.0003230821,0.00009555837,0.00003824644,0.002578892,0.0001102834,0.003884555],"genre_scores_gemma":[0.9912,0.002408745,0.002605872,0.0002565843,0.00001817319,0.00003399093,0.001511667,0.00002570353,0.001939277],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001610118,"threshold_uncertainty_score":0.003201485,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3014953259","doi":"10.1128/msphere.00195-20","title":"Identification of the Neuroinvasive Pathogen Host Target, LamR, as an Endothelial Receptor for the Treponema pallidum Adhesin Tp0751","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Syphilis Diagnosis and Treatment","field":"Medicine","cited_by":40,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Victoria","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health; Michael Smith Health Research BC; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Treponema; Bacterial adhesin; Microbiology; Biology; Neisseria; Pathogen; Neisseria meningitidis; Virology; Neisseria gonorrhoeae; Haemophilus influenzae; Syphilis; Streptococcus pneumoniae; Human pathogen; Immunology; Virulence; Bacteria; Gene; Antibiotics; Genetics","authors":[{"name":"Karen Lithgow","is_ca":true},{"name":"Brigette Church","is_ca":true},{"name":"Alloysius Gomez","is_ca":true},{"name":"Emily Tsao","is_ca":true},{"name":"Simon Houston","is_ca":true},{"name":"Leigh Anne Swayne","is_ca":true},{"name":"Caroline E. Cameron","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.03198487012291631,"gpt":0.2737969319247249,"spread":0.2418120618018086,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001276405,0.0001400134,0.0001114618,0.0001469719,0.0001340239,0.0003208564,0.0001809232,0.0004361984,0.001590835],"category_scores_gemma":[0.0001570825,0.00006384308,0.0001483177,0.00005545132,0.000130859,0.0001591734,0.0001857714,0.0003485255,0.0004692685],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001684446,"about_ca_system_score_gemma":0.000115711,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004667128,"about_ca_topic_score_gemma":0.0005132896,"domain_scores_codex":[0.999909,0.00002253485,0.000002822448,0.00001271428,0.00002604977,0.00002668073],"domain_scores_gemma":[0.9999468,0.00001120004,0.0000121561,0.000006325754,0.00001170605,0.00001175642],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001079785,0.00003594402,0.00235653,0.00004252194,0.000007530526,0.0007042157,0.00005059646,0.00008471293,0.9894638,0.0005401098,0.0002297739,0.006376339],"study_design_scores_gemma":[0.00003531003,0.001239598,0.1041162,0.00006548625,0.00005511114,0.0104327,0.0004563115,0.007616777,0.8565293,0.000493795,0.01893504,0.00002441385],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9862066,0.003234519,0.003758619,0.0005164667,0.00003100408,0.00002732025,0.00008812368,0.00003501612,0.006102295],"genre_scores_gemma":[0.9942335,0.0008914839,0.002055763,0.0001626163,0.00001265636,0.000007523997,0.0001102423,0.000002786514,0.002523293],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001590835,"threshold_uncertainty_score":0.00532192,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2783653218","doi":"10.1128/mspheredirect.00554-17","title":"Stability of the Influenza Virus Hemagglutinin Protein Correlates with Evolutionary Dynamics","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Influenza Virus Research Studies","field":"Medicine","cited_by":39,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Montréal","funders":"National Institute of Allergy and Infectious Diseases; National Institute of General Medical Sciences; Defense Advanced Research Projects Agency; Hartwell Foundation","keywords":"Hemagglutinin (influenza); Biology; Influenza A virus; Virus; Genetics; Lineage (genetic); Antigenic drift; Nucleoprotein; Phylogenetic tree; Virology; Viral evolution; Molecular evolution; H5N1 genetic structure; Evolutionary biology; Evolutionary dynamics; Gene; Coronavirus disease 2019 (COVID-19); Population; Genome","authors":[{"name":"Eili Klein","is_ca":false},{"name":"Deena Blumenkrantz","is_ca":false},{"name":"Adrian W.R. Serohijos","is_ca":true},{"name":"Eugene I. Shakhnovich","is_ca":false},{"name":"Jeong‐Mo Choi","is_ca":false},{"name":"João V. Rodrigues","is_ca":false},{"name":"Brendan D. Smith","is_ca":false},{"name":"Andrew P. Lane","is_ca":false},{"name":"Andrew B. Feldman","is_ca":false},{"name":"Andrew Pekosz","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.04211826479044123,"gpt":0.3182540631687306,"spread":0.2761357983782894,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008387507,0.0001640787,0.0002323115,0.0005277802,0.0002948865,0.00081491,0.0002595636,0.0003404779,0.0007220106],"category_scores_gemma":[0.006178536,0.0001944053,0.0002279083,0.0003144392,0.0004413274,0.0008548761,0.0003320444,0.0004853306,0.0001493477],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004356621,"about_ca_system_score_gemma":0.0002367443,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002183705,"about_ca_topic_score_gemma":0.001947632,"domain_scores_codex":[0.9998343,0.00005232088,0.00001210145,0.00004538556,0.00002860167,0.00002715855],"domain_scores_gemma":[0.9983587,0.0009534188,0.0003391447,0.000100167,0.0001577016,0.00009084775],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0004377842,0.0001562946,0.6679181,0.000218708,0.0004621662,0.0002707331,0.0004737664,0.2128076,0.07942823,0.008079099,0.0010407,0.02870683],"study_design_scores_gemma":[0.0000180125,0.0002141311,0.3743908,0.00002899051,0.0001130939,0.0002772428,0.0002273954,0.6004667,0.01471201,0.008594071,0.0008978663,0.00005977856],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9964978,0.0002467878,0.002257817,0.000106464,0.000005227696,0.000003777914,0.00004167448,0.00001882681,0.0008217124],"genre_scores_gemma":[0.9993815,0.00007182858,0.0004025155,0.000008462503,0.000002427963,0.000001892703,0.0000517501,0.000005962234,0.00007364346],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002183705,"threshold_uncertainty_score":0.004435837,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2756055962","doi":"10.1128/msphere.00307-17","title":"A Multicenter Study To Evaluate the Performance of High-Throughput Sequencing for Virus Detection","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Molecular Biology Techniques and Applications","field":"Biochemistry, Genetics and Molecular Biology","cited_by":37,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Sanofi (Canada)","funders":"","keywords":"Standardization; Throughput; Computer science; Computational biology; Biology; Telecommunications; Operating system","authors":[{"name":"Arifa S. Khan","is_ca":false},{"name":"Siemon H. S. Ng","is_ca":true},{"name":"Olivier M. Vandeputte","is_ca":false},{"name":"Aisha AlJanahi","is_ca":false},{"name":"Avisek Deyati","is_ca":false},{"name":"Jean-Pol Cassart","is_ca":false},{"name":"Robert L. Charlebois","is_ca":true},{"name":"Lanyn P. Taliaferro","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.02157598872328596,"gpt":0.3195418031910424,"spread":0.2979658144677564,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.02880925,0.001766204,0.001339226,0.000809776,0.001693183,0.001507959,0.001001719,0.00192157,0.003440995],"category_scores_gemma":[0.01868307,0.0004395985,0.001448053,0.0009814472,0.001048014,0.001483414,0.001296937,0.001120728,0.00158508],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00142448,"about_ca_system_score_gemma":0.003726285,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002458959,"about_ca_topic_score_gemma":0.001228634,"domain_scores_codex":[0.9830205,0.01116267,0.001098927,0.00219542,0.001620347,0.0009021282],"domain_scores_gemma":[0.9728573,0.006146717,0.004774424,0.006189408,0.006913854,0.003118332],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.1874614,0.05138636,0.5024183,0.001766475,0.003668253,0.001126437,0.003707487,0.002103605,0.08909132,0.001560543,0.005559669,0.1501501],"study_design_scores_gemma":[0.02180398,0.5579962,0.3671584,0.0002067173,0.002307773,0.001733573,0.001339053,0.002856177,0.02683389,0.000480498,0.01712416,0.0001595133],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9786142,0.001032407,0.007008705,0.0003552322,0.0001982496,0.008533193,0.001617532,0.0001442336,0.002496399],"genre_scores_gemma":[0.9748076,0.0003475973,0.0109959,0.0006958536,0.0002678302,0.00825689,0.002924132,0.00008594886,0.001618286],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02880925,"threshold_uncertainty_score":0.1523597,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3080677031","doi":"10.1128/msphere.00748-20","title":"Antibiotic Resistance in Vibrio cholerae: Mechanistic Insights from IncC Plasmid-Mediated Dissemination of a Novel Family of Genomic Islands Inserted at <i>trmE</i>","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":37,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Sherbrooke","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Vibrio cholerae; Plasmid; Cholera; Biology; Antibiotic resistance; Mobile genetic elements; Genomic island; Multiple drug resistance; Microbiology; Drug resistance; Genetics; Gene; Virology; Antibiotics; Bacteria","authors":[{"name":"Nicolas Rivard","is_ca":true},{"name":"Rita R. Colwell","is_ca":false},{"name":"Vincent Burrus","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01177353161314927,"gpt":0.2392122820354617,"spread":0.2274387504223124,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001604635,0.0002827804,0.0001656852,0.0002009291,0.0002019801,0.0004680598,0.0002850642,0.000511083,0.0007639924],"category_scores_gemma":[0.0001186649,0.0001233001,0.0002307944,0.00009554976,0.0005399282,0.0003824557,0.000212636,0.0004659116,0.0001834663],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004451738,"about_ca_system_score_gemma":0.0002830672,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008591056,"about_ca_topic_score_gemma":0.0008024322,"domain_scores_codex":[0.9999434,0.000007979265,0.000001791664,0.00001141925,0.00001511411,0.00002025315],"domain_scores_gemma":[0.9999375,0.00001441822,0.00001500822,0.000008331949,0.000008878435,0.00001581625],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001619548,0.00008732123,0.001444279,0.0001864614,0.0000128136,0.000642176,0.0001431243,0.000510243,0.9887756,0.003294347,0.0001238857,0.004617844],"study_design_scores_gemma":[0.00009437025,0.001456737,0.05689302,0.0001059441,0.00008193878,0.004296392,0.001307968,0.01414922,0.8986112,0.006063789,0.01688745,0.00005185637],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9773112,0.009301382,0.007572563,0.001235721,0.00004775896,0.00003560757,0.0001943545,0.00009132574,0.004210147],"genre_scores_gemma":[0.9958049,0.001938128,0.0011321,0.0001075877,0.00001055909,0.00001176378,0.0001089928,0.000004883404,0.0008811086],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008591056,"threshold_uncertainty_score":0.003229976,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2953319053","doi":"10.1128/msphere.00436-18","title":"Extracellular Electron Transfer May Be an Overlooked Contribution to Pelagic Respiration in Humic-Rich Freshwater Lakes","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"Microbial Fuel Cells and Bioremediation","field":"Environmental Science","cited_by":36,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université du Québec à Montréal","funders":"National Aeronautics and Space Administration; NASA Astrobiology Institute; National Institute of Food and Agriculture; Deutsche Forschungsgemeinschaft; University of Wisconsin-Madison; National Science Foundation","keywords":"Bog; Redox; Eutrophication; Electron transfer; Carbon cycle; Environmental chemistry; Carbon fibers; Peat; Environmental science; Ecology; Anaerobic respiration; Chemistry; Biology; Anaerobic exercise; Photochemistry; Ecosystem; Physiology; Nutrient","authors":[{"name":"Shaomei He","is_ca":false},{"name":"Maximilian P. Lau","is_ca":true},{"name":"Alexandra M. Linz","is_ca":false},{"name":"Eric Roden","is_ca":false},{"name":"Katherine D. McMahon","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.0073372239661014,"gpt":0.21259024853218,"spread":0.2052530245660786,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001691601,0.000252811,0.0002522524,0.0003777463,0.0004013331,0.0004658807,0.00009900166,0.0002813785,0.0004578627],"category_scores_gemma":[0.0003135283,0.0001131916,0.0001516142,0.0003122863,0.0002534638,0.0003779867,0.0004189188,0.0001339347,0.00008091253],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001920289,"about_ca_system_score_gemma":0.0002418318,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001317038,"about_ca_topic_score_gemma":0.002896427,"domain_scores_codex":[0.9998804,0.00002119165,0.000009293632,0.0000329496,0.00002351499,0.00003263378],"domain_scores_gemma":[0.9998751,0.00003014994,0.00003930884,0.00001112289,0.00002002983,0.00002425869],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001823685,0.0000221209,0.09863993,0.000286852,0.00006508374,0.0002767955,0.0004396701,0.000407572,0.8840912,0.000404923,0.0001007274,0.0150828],"study_design_scores_gemma":[0.000007647199,0.0001785377,0.8554479,0.0000743362,0.0001199777,0.0006828936,0.001666792,0.003491241,0.1314796,0.001289488,0.005536904,0.00002458165],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9982778,0.0004748357,0.0006437167,0.00005072174,0.000003167165,0.000003063998,0.0001244124,0.00002372909,0.0003985406],"genre_scores_gemma":[0.9985092,0.0002289478,0.0007957563,0.00004027088,0.000004286496,0.000004236023,0.0001548162,0.000005221405,0.0002572085],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001317038,"threshold_uncertainty_score":0.00261873,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3095219632","doi":"10.1128/msphere.00512-20","title":"Sediment Metagenomes as Time Capsules of Lake Microbiomes","year":2020,"lang":"en","type":"article","venue":"mSphere","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":36,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University; Concordia University","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Sediment; Microbiome; Environmental science; Geology; Biology; Geomorphology; Bioinformatics","authors":[{"name":"Rebecca E. Garner","is_ca":true},{"name":"Irene Gregory‐Eaves","is_ca":true},{"name":"David A. Walsh","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007991984981461562,"gpt":0.1948263542978394,"spread":0.1868343693163778,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000293623,0.0003412656,0.000234892,0.001274318,0.0002596244,0.001067426,0.000145712,0.0002698214,0.0006713453],"category_scores_gemma":[0.0005751786,0.0002258188,0.0002777814,0.001589338,0.0001650415,0.0005342779,0.0005410737,0.0003960502,0.0002137279],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000192926,"about_ca_system_score_gemma":0.0002377937,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001336976,"about_ca_topic_score_gemma":0.003219739,"domain_scores_codex":[0.9998059,0.00003009199,0.00001541571,0.00007023331,0.00004466647,0.00003375414],"domain_scores_gemma":[0.9997882,0.00004346542,0.00007280365,0.00001969172,0.00004170051,0.00003407308],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003588366,0.0000454341,0.06043598,0.0002629729,0.0001293965,0.0001000009,0.0005426725,0.001538259,0.9068482,0.0009249884,0.000228004,0.0285853],"study_design_scores_gemma":[0.00002104785,0.000388778,0.807243,0.00009601892,0.0002225301,0.0005170608,0.001206473,0.01773095,0.1532632,0.003515711,0.01571148,0.00008373418],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9710056,0.002397258,0.01962952,0.0001071916,0.00003985747,0.00002984671,0.005159911,0.0001339227,0.001496968],"genre_scores_gemma":[0.9679769,0.001295955,0.02418133,0.0001042359,0.00002263834,0.00004899128,0.005374778,0.00007023113,0.0009249765],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001336976,"threshold_uncertainty_score":0.002658427,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W4323533996","doi":"10.1128/msphere.00478-22","title":"Evidence for a Causal Role for Escherichia coli Strains Identified as Adherent-Invasive (AIEC) in Intestinal Inflammation","year":2023,"lang":"en","type":"article","venue":"mSphere","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":35,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta","funders":"National Institute of General Medical Sciences; Office of Research and Economic Development, University of Nebraska-Lincoln; National Institutes of Health; Institut National de la Santé et de la Recherche Médicale; University of Nebraska-Lincoln; McMaster University; Crohn's and Colitis Foundation; University of Pennsylvania","keywords":"Escherichia coli; Inflammation; Microbiology; Biology; Immunology; Genetics; Gene","authors":[{"name":"Hatem Kittana","is_ca":false},{"name":"João Carlos Gomes‐Neto","is_ca":false},{"name":"Kari Heck","is_ca":false},{"name":"Anthony F. Juritsch","is_ca":false},{"name":"Jason Sughroue","is_ca":false},{"name":"Yibo Xian","is_ca":false},{"name":"Sara Mantz","is_ca":false},{"name":"Rafael R. Segura Muñoz","is_ca":false},{"name":"Liz A. Cody","is_ca":false},{"name":"Robert Schmaltz","is_ca":false},{"name":"Christopher L. Anderson","is_ca":false},{"name":"Rodney A. Moxley","is_ca":false},{"name":"Jesse M. Hostetter","is_ca":false},{"name":"Samodha C. Fernando","is_ca":false},{"name":"Jennifer Clarke","is_ca":false},{"name":"Stephen D. Kachman","is_ca":false},{"name":"Clayton E. Cressler","is_ca":false},{"name":"Andrew K. Benson","is_ca":false},{"name":"Jens Walter","is_ca":true},{"name":"Amanda E. Ramer‐Tait","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.05048126553881809,"gpt":0.3340215877831571,"spread":0.283540322244339,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000921287,0.0004399992,0.0002984938,0.0009198354,0.0002717159,0.0005105031,0.0002586106,0.0007822381,0.004493051],"category_scores_gemma":[0.001947705,0.000179323,0.0002915557,0.0005926744,0.0007951932,0.000341558,0.0005724184,0.001014398,0.000555932],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001546633,"about_ca_system_score_gemma":0.0003337516,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005174507,"about_ca_topic_score_gemma":0.0005833171,"domain_scores_codex":[0.9992574,0.0001446034,0.00006191093,0.0001849072,0.0002491922,0.0001019019],"domain_scores_gemma":[0.9960744,0.001165955,0.001360716,0.0003484961,0.0005440214,0.0005063686],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00220617,0.0007130334,0.2903095,0.002103811,0.0005503754,0.003790592,0.0003022433,0.0001335807,0.6351373,0.002563717,0.002750694,0.05943915],"study_design_scores_gemma":[0.00006038104,0.001409628,0.9043227,0.0003632057,0.000443417,0.01155633,0.0006743943,0.0005719497,0.06141976,0.002636358,0.01650143,0.00004038572],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9322959,0.03565485,0.01213488,0.005065974,0.0007215613,0.0001005396,0.001553256,0.0002193133,0.01225374],"genre_scores_gemma":[0.9811713,0.01051616,0.004692558,0.001139922,0.0002142846,0.00002375281,0.0007211374,0.00002038175,0.001500495],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004493051,"threshold_uncertainty_score":0.0150308,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2755821481","doi":"10.1128/msphere.00384-16","title":"Drug-Free Approach To Study the Unusual Cell Cycle of Giardia intestinalis","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Parasitic Infections and Diagnostics","field":"Immunology and Microbiology","cited_by":35,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Trent University","funders":"","keywords":"Giardia; Elutriation; Biology; Cell cycle; Microbiology; Giardia lamblia; Cell; Protozoa; Cyst; Pathology; Chemistry; Genetics; Medicine","authors":[{"name":"Kathleen Horlock-Roberts","is_ca":true},{"name":"Chase Reaume","is_ca":true},{"name":"Guillem Dayer","is_ca":true},{"name":"Christine Ouellet","is_ca":true},{"name":"Nicholas Cook","is_ca":true},{"name":"Janet Yee","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01690037675601071,"gpt":0.2682369630377945,"spread":0.2513365862817838,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001598494,0.0003317619,0.0002407514,0.0003895368,0.0002276649,0.0002430094,0.0003147022,0.0003140033,0.0009724263],"category_scores_gemma":[0.0001269688,0.00009869334,0.0001556573,0.0002294295,0.0001848725,0.0002277719,0.0002152595,0.0005236921,0.0004536038],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002515221,"about_ca_system_score_gemma":0.0001715653,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004780099,"about_ca_topic_score_gemma":0.0009682873,"domain_scores_codex":[0.9999006,0.00001818693,0.00000672838,0.00002763515,0.00003303415,0.00001388888],"domain_scores_gemma":[0.9999329,0.00002083871,0.00001126452,0.000009778611,0.00001576904,0.000009609947],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00002652123,0.00002472237,0.0001170061,0.00005197823,0.000004025365,0.00002027766,0.0000127045,0.00006478062,0.9966121,0.0001921196,0.00008099246,0.002792663],"study_design_scores_gemma":[0.000014561,0.0002413829,0.002642437,0.000007427341,0.0000201665,0.0001846993,0.00001306831,0.001590383,0.9852584,0.0001177245,0.009902692,0.000007021778],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8823543,0.02013087,0.08699919,0.0008699507,0.0004526479,0.0004237639,0.001399104,0.0004772236,0.006892975],"genre_scores_gemma":[0.9159607,0.009614255,0.06178306,0.0005153556,0.0001163613,0.0004668439,0.002122884,0.00007831891,0.009342319],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009724263,"threshold_uncertainty_score":0.003253043,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W3164882985","doi":"10.1128/msphere.00427-21","title":"Inhibition of Three Potato Pathogens by Phenazine-Producing <i>Pseudomonas</i> spp. Is Associated with Multiple Biocontrol-Related Traits","year":2021,"lang":"en","type":"article","venue":"mSphere","topic":"Plant-Microbe Interactions and Immunity","field":"Agricultural and Biological Sciences","cited_by":33,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université de Moncton; Agriculture and Agri-Food Canada","funders":"New Brunswick Innovation Foundation; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Phenazine; Biological pest control; Biology; Pseudomonas; Microbiology; Pseudomonas aeruginosa; Biotechnology; Botany; Bacteria; Genetics; Biochemistry","authors":[{"name":"Adrien Biessy","is_ca":true},{"name":"Amy Novinscak","is_ca":true},{"name":"Renée St-Onge","is_ca":true},{"name":"Geneviève Léger","is_ca":true},{"name":"Antoine Zboralski","is_ca":true},{"name":"Martin Filion","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01150509687571524,"gpt":0.1885053141047203,"spread":0.1770002172290051,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002011017,0.0003317429,0.0003309033,0.0002807321,0.0001288421,0.0003271156,0.0001547681,0.0003101915,0.0004574927],"category_scores_gemma":[0.000269247,0.0001347993,0.0002764245,0.0002387044,0.0001841968,0.0001764762,0.0003420506,0.0004419456,0.0001553189],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001136608,"about_ca_system_score_gemma":0.0001556745,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006737554,"about_ca_topic_score_gemma":0.0007668436,"domain_scores_codex":[0.9997405,0.00004498609,0.00003704338,0.00006249722,0.00005966529,0.0000552128],"domain_scores_gemma":[0.9996576,0.0001004905,0.0001183763,0.00003072484,0.0000442395,0.0000486039],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00005983905,0.00003487779,0.00170642,0.00002363041,0.00000702967,0.00002812029,0.00001530771,0.00002771259,0.997166,0.000009291412,0.000007279376,0.0009146172],"study_design_scores_gemma":[0.00001414991,0.001415403,0.1261616,0.00001186594,0.00006154855,0.0008411658,0.000192012,0.0008709807,0.8697951,0.00004339539,0.0005808709,0.00001187397],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988776,0.0002320142,0.0004111598,0.00002289098,0.000003398734,0.00001040767,0.0001071022,0.00001086095,0.000324596],"genre_scores_gemma":[0.9978315,0.0002256947,0.001160203,0.00003011042,0.000003576115,0.00001709018,0.0002970078,0.000006797376,0.0004279968],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0006737554,"threshold_uncertainty_score":0.001530468,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2770627510","doi":"10.1128/msphere.00477-17","title":"The Candida albicans TOR-Activating GTPases Gtr1 and Rhb1 Coregulate Starvation Responses and Biofilm Formation","year":2017,"lang":"en","type":"article","venue":"mSphere","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":33,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"National Institute of Allergy and Infectious Diseases; National Research Council Canada; National Tsing Hua University; Science Foundation Ireland","keywords":"Biofilm; Candida albicans; GTPase; Biology; Microbiology; Mutant; Effector; Regulator; Cell biology; Corpus albicans; Virulence; Gene; Bacteria; Biochemistry; Genetics","authors":[{"name":"Peter R. Flanagan","is_ca":false},{"name":"Ning-Ning Liu","is_ca":false},{"name":"Darren J. Fitzpatrick","is_ca":false},{"name":"Karsten Hokamp","is_ca":false},{"name":"Julia R. Köhler","is_ca":false},{"name":"Gary P. Moran","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.02937950988008281,"gpt":0.3059771875019873,"spread":0.2765976776219045,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001306874,0.0004020327,0.0002611226,0.0003686705,0.0001922574,0.0003429966,0.0001927427,0.000331563,0.0007998332],"category_scores_gemma":[0.0001241825,0.000132385,0.0002540878,0.0001441918,0.0002174436,0.0001419555,0.0003475649,0.0004869043,0.0003149126],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003816143,"about_ca_system_score_gemma":0.0002530726,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008913417,"about_ca_topic_score_gemma":0.0008732866,"domain_scores_codex":[0.9998103,0.00003058446,0.00001179885,0.00003640164,0.00006324369,0.00004769756],"domain_scores_gemma":[0.9998949,0.00001159973,0.00004277314,0.00001054741,0.00001289694,0.00002732132],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001277919,0.00001750699,0.0002327825,0.00002359105,0.000002038319,0.00005187332,0.00001458746,0.00004483973,0.9980945,0.00007396398,0.00005004295,0.001266436],"study_design_scores_gemma":[0.00002553736,0.0002669964,0.03422305,0.00001937625,0.00001541078,0.0006139691,0.0001192566,0.001543918,0.9599066,0.0001564291,0.003095764,0.00001353953],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9935971,0.002911923,0.001002999,0.0002571082,0.00003008622,0.00002523651,0.0004937527,0.00008307016,0.001598635],"genre_scores_gemma":[0.9956141,0.0006933378,0.001296999,0.00008487267,0.00000794625,0.00002614421,0.000497096,0.00001623173,0.001763328],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008913417,"threshold_uncertainty_score":0.002768874,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2951933896","doi":"10.1128/msphere.00285-19","title":"Agent-Based Modeling Demonstrates How Local Chemotactic Behavior Can Shape Biofilm Architecture","year":2019,"lang":"en","type":"article","venue":"mSphere","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":33,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Canadian Institute for Advanced Research","funders":"National Institute of Diabetes and Digestive and Kidney Diseases; National Institute of General Medical Sciences; National Institutes of Health","keywords":"Biofilm; Biological system; Bacteria; Nanotechnology; Biochemical engineering; Mutant; Distributed computing; Computer science; Microbiology; Biology; Biophysics; Chemistry; Materials science; Engineering; Biochemistry; Genetics","authors":[{"name":"Emily Goers Sweeney","is_ca":false},{"name":"Andrew Nishida","is_ca":false},{"name":"Alexandra Weston","is_ca":false},{"name":"Maria S. Bañuelos","is_ca":false},{"name":"Kristin Potter","is_ca":false},{"name":"John S. Conery","is_ca":false},{"name":"Karen Guillemin","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.009890566383931921,"gpt":0.2142584652671539,"spread":0.204367898883222,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001720402,0.0006901741,0.0006026909,0.0003940873,0.0006630477,0.0009617675,0.0008216771,0.001532689,0.002937951],"category_scores_gemma":[0.0005647145,0.0004494369,0.0006911962,0.0003060574,0.0006216277,0.0007309104,0.000591901,0.0006992178,0.0004195473],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006399287,"about_ca_system_score_gemma":0.0007083096,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.016002,"about_ca_topic_score_gemma":0.0117686,"domain_scores_codex":[0.9999158,0.00002298536,0.00000461356,0.00001834146,0.00002555643,0.00001263576],"domain_scores_gemma":[0.9998119,0.0000975201,0.00002586092,0.00001867183,0.00002662555,0.00001940596],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.000009344596,0.00003295744,0.0009934113,0.00006046282,0.00003829385,0.0001188048,0.0001002937,0.9725907,0.005251684,0.01646382,0.00048914,0.00385095],"study_design_scores_gemma":[0.00001150478,0.0000131566,0.0003227531,0.000007420394,0.00001041144,0.00002267698,0.00001658319,0.9927528,0.0004305444,0.004522108,0.001879143,0.00001097672],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.3161723,0.002239388,0.5829743,0.00302446,0.000356437,0.0001557031,0.0006886039,0.0007773118,0.09361149],"genre_scores_gemma":[0.9234367,0.002022404,0.06448688,0.0002653611,0.00006424746,0.0002107445,0.0001751566,0.0001316216,0.009206806],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.016002,"threshold_uncertainty_score":0.03181773,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2782755660","doi":"10.1128/msphere.00551-17","title":"Evidence that the Plasmodium falciparum Protein Sortilin Potentially Acts as an Escorter for the Trafficking of the Rhoptry-Associated Membrane Antigen to the Rhoptries","year":2018,"lang":"en","type":"article","venue":"mSphere","topic":"Mosquito-borne diseases and control","field":"Medicine","cited_by":33,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Université Laval","funders":"Natural Sciences and Engineering Research Council of Canada; Australian Research Council; National Science Council; Canadian Blood Services","keywords":"Rhoptry; Biology; Plasmodium falciparum; Cell biology; Biogenesis; Transmembrane protein; Transport protein; Golgi apparatus; Plasmodium (life cycle); Malaria; Parasite hosting; Apicomplexa; Endoplasmic reticulum; Immunology; Genetics; Gene","authors":[{"name":"Stéphanie Hallée","is_ca":true},{"name":"Justin A. Boddey","is_ca":false},{"name":"Alan F. Cowman","is_ca":false},{"name":"Dave Richard","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.0376283510160455,"gpt":0.2960302704489646,"spread":0.2584019194329191,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003078109,0.0002142055,0.0001207145,0.0004429129,0.0002736901,0.0004195709,0.0002947173,0.0005697047,0.003412192],"category_scores_gemma":[0.0003243264,0.0001034239,0.0002313288,0.0001776515,0.0005274068,0.0006820952,0.0004664379,0.0008216951,0.000572882],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000190458,"about_ca_system_score_gemma":0.0002750991,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004143811,"about_ca_topic_score_gemma":0.000438677,"domain_scores_codex":[0.9998368,0.00003842345,0.00001194387,0.00002785431,0.00005544798,0.00002959229],"domain_scores_gemma":[0.9997187,0.00009179262,0.00006467497,0.00002605853,0.00005557711,0.00004314898],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0008257604,0.0001425046,0.007443186,0.001504924,0.000140095,0.004110713,0.0003306069,0.0001682721,0.9086594,0.01663063,0.005154608,0.05488939],"study_design_scores_gemma":[0.0001502225,0.002196213,0.1284879,0.0006211313,0.0006842427,0.04268419,0.00168736,0.00222072,0.5327677,0.01702183,0.271381,0.00009760482],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7616886,0.1280062,0.01151695,0.02259256,0.001029595,0.00006533241,0.0008468275,0.0001271656,0.07412682],"genre_scores_gemma":[0.9315646,0.05604176,0.003555457,0.001621496,0.0004217477,0.00001099658,0.0004359882,0.00001036486,0.006337569],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003412192,"threshold_uncertainty_score":0.01141489,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2338003926","doi":"10.1128/msphere.00075-15","title":"A Novel Glycolipid Biosurfactant Confers Grazing Resistance upon Pantoea ananatis BRT175 against the Social Amoeba Dictyostelium discoideum","year":2016,"lang":"en","type":"article","venue":"mSphere","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":32,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Armand Frappier Museum; Institut National de la Recherche Scientifique; University of Regina","funders":"Canadian Institutes of Health Research; Canada Foundation for Innovation; Natural Sciences and Engineering Research Council of Canada; Government of Canada","keywords":"Dictyostelium discoideum; Biology; Microbiology; Amoeba (genus); Glycolipid; Gene; Dictyostelium; Bacteria; Genetics; Biochemistry","authors":[{"name":"Derek D. N. Smith","is_ca":true},{"name":"Arvin Nickzad","is_ca":true},{"name":"Éric Déziel","is_ca":true},{"name":"John Stavrinides","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01493563391861675,"gpt":0.2650600782100709,"spread":0.2501244442914541,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001180548,0.0005166481,0.0003637379,0.000322517,0.0001311821,0.0003538922,0.0001990717,0.0003186314,0.0004320349],"category_scores_gemma":[0.0002103062,0.000144169,0.0002568862,0.0002559381,0.0001792687,0.0001621297,0.0003381656,0.0003691973,0.0001887221],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00020489,"about_ca_system_score_gemma":0.0002276481,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00133917,"about_ca_topic_score_gemma":0.001816558,"domain_scores_codex":[0.9998112,0.00002812319,0.00001831121,0.00003489928,0.00006842572,0.00003895888],"domain_scores_gemma":[0.9998497,0.00003466371,0.00004703832,0.00001456864,0.00002147949,0.00003247565],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00002421823,0.00000789116,0.0001245111,0.00001093749,0.000001549801,0.00003372067,0.000006484174,0.000007971867,0.9995118,0.000004239819,0.000004177257,0.0002625684],"study_design_scores_gemma":[0.00002248989,0.001255264,0.0342628,0.00001027062,0.00005062963,0.0006911946,0.0001451993,0.0006057109,0.9612197,0.00002759571,0.001696946,0.00001212109],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9981322,0.0003113218,0.0007110808,0.00005999891,0.00001018324,0.00003874267,0.0003141309,0.00004489598,0.0003774388],"genre_scores_gemma":[0.9948873,0.0003218148,0.002230778,0.00006035527,0.000007060214,0.00004063167,0.001130911,0.00002262557,0.001298376],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00133917,"threshold_uncertainty_score":0.002662778,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null}]}