{"meta":{"page":1,"per_page":50,"max_per_page":100,"total":1368,"total_is_capped":false,"direct_labels_cover":1,"predictions_cover":1368,"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":"0eeb850af1f5","filters":{"venue":"Applied and Environmental Microbiology"}},"results":[{"id":"W2108718991","doi":"10.1128/aem.01541-09","title":"Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities","year":2009,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":21757,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University; University of British Columbia","funders":"Alfred P. Sloan Foundation; National Science Foundation","keywords":"Laptop; Software; Pyrosequencing; Computer science; Metagenomics; Data mining; Computational biology; Biology; Software engineering; Genetics; Gene; Programming language; Operating system","authors":[{"name":"Patrick D. Schloss","is_ca":false},{"name":"Sarah L. Westcott","is_ca":false},{"name":"Thomas Ryabin","is_ca":false},{"name":"Justine R. Hall","is_ca":false},{"name":"Martin Hartmann","is_ca":true},{"name":"Emily B. Hollister","is_ca":false},{"name":"Ryan A. Lesniewski","is_ca":false},{"name":"Brian B. Oakley","is_ca":false},{"name":"Donovan H. Parks","is_ca":true},{"name":"Courtney J. Robinson","is_ca":false},{"name":"Jason W. Sahl","is_ca":false},{"name":"Blaž Stres","is_ca":false},{"name":"Gerhard Thallinger","is_ca":false},{"name":"David J. Horn","is_ca":false},{"name":"Carolyn F. Weber","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.02640740679992318,"gpt":0.2161884023350541,"spread":0.1897809955351309,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow","sts"],"consensus_categories":[],"category_scores_codex":[0.0005457187,0.0003480659,0.0005265763,0.00005791284,0.001720424,0.00007220337,0.0007234368,0.0002866135,0.0005420402],"category_scores_gemma":[0.00001095275,0.0003601653,0.00004581454,0.00006699577,0.001005354,0.0001942133,0.001860597,0.0007686744,0.00004252332],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000116484,"about_ca_system_score_gemma":0.00000766711,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007727425,"about_ca_topic_score_gemma":0.001233151,"domain_scores_codex":[0.9984224,0.0002434063,0.00036846,0.0003614786,0.00003156294,0.0005727056],"domain_scores_gemma":[0.9989842,0.0002649575,0.0001588963,0.0004750567,0.000002823441,0.0001141129],"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":[0.0002512818,0.0002919062,0.01975383,0.000015814,0.00004918893,9.56704e-7,0.00356324,0.0002284621,0.9655053,0.0001753375,0.001866572,0.008298136],"study_design_scores_gemma":[0.04287301,0.00872196,0.4342075,0.000347601,0.0009877654,0.004092324,0.07115395,0.002439148,0.1598679,0.02880782,0.2368381,0.009662941],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9970928,0.00006804337,0.0009647532,0.0001127795,0.00007501467,0.0007247939,0.00008310247,0.00005665053,0.0008220207],"genre_scores_gemma":[0.9932225,0.00008719375,0.002965853,0.002101468,0.00003381713,0.00003010847,0.001405741,0.00002819062,0.000125116],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8056374,"threshold_uncertainty_score":0.999885,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1971059297","doi":"10.1128/aem.68.8.3795-3801.2002","title":"Role of <i>Pseudomonas putida</i> Indoleacetic Acid in Development of the Host Plant Root System","year":2002,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Plant-Microbe Interactions and Immunity","field":"Agricultural and Biological Sciences","cited_by":1794,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Waterloo","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Pseudomonas putida; Bacteria; Biology; Mutant; Auxin; Seedling; Rhizosphere; Botany; Microbiology; Biochemistry; Gene","authors":[{"name":"Cheryl L. Patten","is_ca":true},{"name":"Bernard R. Glick","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.006123003647498024,"gpt":0.1427698146142067,"spread":0.1366468109667087,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00006225449,0.00009443877,0.00016347,0.00001010522,0.00008195409,0.000003378633,0.0001459624,0.00007644633,0.00008246398],"category_scores_gemma":[9.651865e-7,0.00003701345,0.00002898086,0.00005277409,0.0001273512,0.00001612464,0.0001334351,0.0001006544,0.00001865894],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003036567,"about_ca_system_score_gemma":0.000001525186,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005664732,"about_ca_topic_score_gemma":0.0001991602,"domain_scores_codex":[0.9994252,0.00003460911,0.0002369172,0.000135391,0.00002595505,0.0001418667],"domain_scores_gemma":[0.999799,0.00003197116,0.0001008187,0.00004817279,0.000001314986,0.00001875162],"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":[0.00001209238,0.0001079379,0.006450106,0.000006218216,0.000008474288,2.415534e-7,0.0002024454,7.776304e-7,0.9892265,0.00002963453,0.00001922783,0.003936383],"study_design_scores_gemma":[0.000171491,0.00003917567,0.1875392,0.00002894519,0.000004774144,0.00006632155,0.00157883,0.000005422883,0.8030967,0.000003858745,0.00737817,0.00008713989],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9985776,0.0003407766,1.698047e-7,0.00003580328,0.00003092191,0.000130774,0.0001635696,0.000004548264,0.0007158503],"genre_scores_gemma":[0.999804,0.00003592228,0.00002800699,0.00002707024,0.000009408676,0.0000082271,0.00006298529,7.102157e-7,0.00002364513],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1861298,"threshold_uncertainty_score":0.1509365,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1982035274","doi":"10.1128/aem.70.9.5373-5382.2004","title":"Biofuel Cells Select for Microbial Consortia That Self-Mediate Electron Transfer","year":2004,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Fuel Cells and Bioremediation","field":"Environmental Science","cited_by":1263,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Saskatchewan","funders":"","keywords":"Microbial fuel cell; Microbial population biology; Redox; Alcaligenes; Bacteria; Chemistry; Microbial consortium; Microbiology; Pseudomonas; Biology; Food science; Anode; Environmental chemistry; Microorganism; Electrode; Inorganic chemistry","authors":[{"name":"Korneel Rabaey","is_ca":false},{"name":"Nico Boon","is_ca":false},{"name":"Steven D. Siciliano","is_ca":true},{"name":"Marc Verhaege","is_ca":false},{"name":"Willy Verstraete","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003723184265503053,"gpt":0.1614016111093939,"spread":0.1576784268438908,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00013639,0.0003121576,0.0002701657,0.00003593479,0.0002037148,0.00002250158,0.0001695949,0.0002570276,0.0004564745],"category_scores_gemma":[9.130316e-7,0.0002827347,0.00008951023,0.00006519934,0.0003591832,0.00006917569,0.00009317855,0.0001557894,0.0003741752],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002251945,"about_ca_system_score_gemma":0.00001250441,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004477737,"about_ca_topic_score_gemma":0.00007303835,"domain_scores_codex":[0.998428,0.00002332085,0.0002578878,0.0006290437,0.00005582344,0.0006058671],"domain_scores_gemma":[0.9996294,0.00003388598,0.00006047656,0.0001554363,0.000001123739,0.0001196555],"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":[0.00006495827,0.0001664407,0.001032751,0.0000157745,0.00002727169,0.000001305415,0.000305901,0.00004530617,0.9971665,0.00005547105,0.0004680424,0.0006503072],"study_design_scores_gemma":[0.002019221,0.000221112,0.001661305,0.000003041932,0.00005769534,0.00003973257,0.00005156917,0.000003779714,0.9559494,0.0003440571,0.03925044,0.0003985985],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.997523,0.0001283647,0.0005513874,0.0001444604,0.0001707421,0.0008310975,0.0002310302,0.0000596099,0.000360347],"genre_scores_gemma":[0.9961286,0.000590278,0.001614768,0.0009120851,0.00008505732,0.00005167303,0.000498036,0.00003481236,0.00008468819],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04121702,"threshold_uncertainty_score":0.9999625,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2131485875","doi":"10.1128/aem.71.9.5544-5550.2005","title":"Fungal Community Analysis by Large-Scale Sequencing of Environmental Samples","year":2005,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Mycorrhizal Fungi and Plant Interactions","field":"Agricultural and Biological Sciences","cited_by":950,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Royal Ontario Museum; University of Toronto","funders":"National Science Foundation","keywords":"Biology; Ascomycota; Basidiomycota; Species richness; Internal transcribed spacer; Dominance (genetics); Fungal Diversity; Soil microbiology; Relative species abundance; Phylum; Botany; Ecology; Pyrosequencing; Microbial population biology; Community structure; Ribosomal RNA; Abundance (ecology); Soil water; Gene; Genetics; Bacteria","authors":[{"name":"Heath O’Brien","is_ca":false},{"name":"Jeri Lynn Parrent","is_ca":false},{"name":"Jason A. Jackson","is_ca":false},{"name":"Jean‐Marc Moncalvo","is_ca":true},{"name":"Rytas Vilgalys","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00647921278751743,"gpt":0.1662573514073977,"spread":0.1597781386198803,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0001180205,0.0001336569,0.0002227325,0.0000162466,0.0002410634,0.000007956153,0.0001248125,0.0001047123,0.004558322],"category_scores_gemma":[0.000001665921,0.00006654338,0.00008247922,0.00006681585,0.0000549692,0.00004138831,0.0001111016,0.000176884,0.00009533804],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004151625,"about_ca_system_score_gemma":9.966717e-7,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002522605,"about_ca_topic_score_gemma":0.0002646902,"domain_scores_codex":[0.9992818,0.00007335151,0.0002000742,0.0001907201,0.00003522742,0.0002187907],"domain_scores_gemma":[0.9994674,0.0003286721,0.00007896229,0.00006338484,6.918226e-7,0.00006084257],"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":[0.00001747729,0.0001451906,0.05369303,0.00000155853,0.00007323199,2.040481e-7,0.0001890375,0.0000102229,0.9412491,0.00002801801,0.0004418746,0.004151022],"study_design_scores_gemma":[0.0005132724,0.0005105818,0.1908585,0.00001401017,0.0006507413,0.0001811243,0.01680314,0.0002579871,0.4730336,0.0001996898,0.3159631,0.001014146],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.985408,0.0004155324,0.00001732014,0.00005938275,0.00001833864,0.00008855519,0.01337559,0.00001309778,0.0006041718],"genre_scores_gemma":[0.9899141,0.0005498427,0.0001441817,0.0002723844,0.00003828489,0.000006342455,0.008976386,0.000001047913,0.0000974084],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4682155,"threshold_uncertainty_score":0.9963517,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2168104108","doi":"10.1128/aem.02772-10","title":"Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads","year":2011,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":788,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Wilfrid Laurier University; University of Waterloo","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Pyrosequencing; Biology; Metagenomics; Genetics; Illumina dye sequencing; 16S ribosomal RNA; Computational biology; Ribosomal RNA; DNA sequencing; Gene; Genome; Sequence assembly; Deep sequencing; Sequence analysis; Transcriptome; Gene expression","authors":[{"name":"Andrea K. Bartram","is_ca":true},{"name":"Michael D. J. Lynch","is_ca":true},{"name":"Jennifer C. Stearns","is_ca":true},{"name":"Gabriel Moreno‐Hagelsieb","is_ca":true},{"name":"Josh D. Neufeld","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.07193464806363736,"gpt":0.2100395760047354,"spread":0.138104927941098,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow","insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0001492023,0.000290089,0.0003966969,0.00003995281,0.0004065872,0.00001122205,0.0004251441,0.0003064385,0.007144433],"category_scores_gemma":[0.000002706848,0.0002915439,0.00005792418,0.00005501776,0.002449113,0.0001387287,0.0007003311,0.0002900208,0.0001201935],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006409167,"about_ca_system_score_gemma":0.000007208184,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003035001,"about_ca_topic_score_gemma":0.0006236744,"domain_scores_codex":[0.9985996,0.0002564312,0.0003980882,0.00034903,0.00004004693,0.0003567261],"domain_scores_gemma":[0.9991909,0.0001303479,0.0002071705,0.0003946428,0.000002013141,0.00007497081],"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":[0.00008049242,0.0002093206,0.007787603,0.000004868997,0.00004550398,0.000001460644,0.002738148,0.00002009971,0.9847446,0.00007814178,0.003024579,0.001265198],"study_design_scores_gemma":[0.001090662,0.0003139085,0.03155637,0.000008750788,0.00006276632,0.00005136979,0.001888555,0.0001965316,0.9539092,0.0007510415,0.009557591,0.0006132885],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9972987,0.0001660958,0.0002086968,0.00003697858,0.0001038279,0.0002312136,0.0008335436,0.00002912173,0.001091856],"genre_scores_gemma":[0.98829,0.0003787763,0.004764928,0.000695344,0.00003513819,0.00001804375,0.005745013,0.00002346277,0.0000493299],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03083542,"threshold_uncertainty_score":0.9999537,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2493607481","doi":"10.1128/aem.01235-16","title":"The Microbiota of Breast Tissue and Its Association with Breast Cancer","year":2016,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":622,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Lawson Health Research Institute; Western University","funders":"Canadian Institutes of Health Research","keywords":"Breast cancer; Biology; Microbiome; Population; Cancer; Bacteria; Microbiology; Staphylococcus epidermidis; Genetics; Immunology; Cancer research; Staphylococcus aureus; Medicine; Environmental health","authors":[{"name":"Camilla Urbaniak","is_ca":true},{"name":"Gregory B. Gloor","is_ca":true},{"name":"Muriel Brackstone","is_ca":false},{"name":"Leslie Scott","is_ca":false},{"name":"Mark Tangney","is_ca":false},{"name":"Gregor Reid","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.001839165056310245,"gpt":0.1787838484676286,"spread":0.1769446834113184,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008513158,0.0001261541,0.0001287818,0.00001219517,0.0001151971,0.00000588131,0.00007108503,0.0001453516,0.00002767575],"category_scores_gemma":[0.000001052744,0.00006934605,0.00001450052,0.00001711101,0.0001950794,0.000002529599,0.00009819785,0.0000460108,0.000006667916],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003172184,"about_ca_system_score_gemma":0.00001717912,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001541688,"about_ca_topic_score_gemma":0.0000345507,"domain_scores_codex":[0.9993368,0.00002539976,0.0001315871,0.0002565674,0.00002034473,0.0002292778],"domain_scores_gemma":[0.9997077,0.00001971859,0.0001095834,0.0001112148,0.000006669698,0.00004511633],"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":[0.00009225053,0.0000230722,0.01034211,0.000009524604,0.00005141359,1.879143e-7,0.00001994326,2.903249e-7,0.9841984,0.00005532276,0.0005055066,0.004701978],"study_design_scores_gemma":[0.001542698,0.0001959412,0.1675339,0.00002379308,0.00004104233,0.0004193997,0.0001056155,4.023483e-7,0.7833031,0.00001335284,0.04656992,0.0002508539],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9964498,0.001271785,0.00001223371,0.001231508,0.00003589146,0.0001656904,0.0007753685,0.000003157115,0.00005460546],"genre_scores_gemma":[0.9953904,0.003603012,0.00002359926,0.0001737666,0.00005374091,0.00001317799,0.00006474001,0.00001297196,0.0006646007],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2008953,"threshold_uncertainty_score":0.282785,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2135780060","doi":"10.1128/aem.01177-06","title":"Use of 16S rRNA and <i>rpoB</i> Genes as Molecular Markers for Microbial Ecology Studies","year":2006,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":604,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Dalhousie University; Canadian Institute for Advanced Research","funders":"","keywords":"rpoB; Biology; Phylogenetic tree; 16S ribosomal RNA; Ribosomal RNA; Subspecies; Genetics; Gene; Phylogenetics; Evolutionary biology; Ecology","authors":[{"name":"Rebecca J. Case","is_ca":false},{"name":"Ingela Dahllöf","is_ca":false},{"name":"Carola Holmström","is_ca":false},{"name":"W. Ford Doolittle","is_ca":true},{"name":"Staffan Kjelleberg","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.006330270348480791,"gpt":0.1874651092974997,"spread":0.1811348389490189,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00006211272,0.0001913451,0.0002646958,0.00002663713,0.00008557709,0.000005907377,0.00006184607,0.0001512148,0.000003149552],"category_scores_gemma":[0.000004914963,0.0001814089,0.00005518281,0.00001392061,0.0005680046,7.937362e-7,0.0002217465,0.00003368249,0.000001270077],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009288502,"about_ca_system_score_gemma":0.000008435767,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002229541,"about_ca_topic_score_gemma":0.00002292503,"domain_scores_codex":[0.9991335,0.00002263461,0.0002133228,0.000382783,0.00001540683,0.0002323017],"domain_scores_gemma":[0.9997026,0.0000383426,0.00008853701,0.0001335918,0.000007224318,0.00002971439],"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":[0.000134716,0.00004548311,0.004188669,0.00002362534,0.0001853076,9.438114e-7,0.00002302449,0.00002839818,0.993394,0.0002595633,0.0006362761,0.001080064],"study_design_scores_gemma":[0.001159688,0.0005345965,0.009681561,0.000003749451,0.00009623508,0.00008419158,0.0002730444,0.000002471651,0.9268293,0.0006294496,0.06039483,0.000310931],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9925176,0.006678476,0.00003785896,0.00007179471,0.00007728981,0.0003304569,0.0002194066,0.00000192765,0.00006518322],"genre_scores_gemma":[0.9938935,0.003394862,0.001876445,0.0003970521,0.00006012429,0.00004696096,0.0001874247,0.00001977703,0.0001238548],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06656468,"threshold_uncertainty_score":0.7397641,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2115338073","doi":"10.1128/aem.71.5.2303-2309.2005","title":"Contribution of <i>Archaea</i> to Total Prokaryotic Production in the Deep Atlantic Ocean","year":2005,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":568,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"","funders":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek","keywords":"Crenarchaeota; Euryarchaeota; Mesopelagic zone; Archaea; Bathyal zone; Thaumarchaeota; Biology; Water column; Oceanography; Ecology; Pelagic zone; Bacteria; Geology; Paleontology","authors":[{"name":"Gerhard J. Herndl","is_ca":false},{"name":"Thomas Reinthaler","is_ca":false},{"name":"Eva Teira","is_ca":false},{"name":"Hendrik van Aken","is_ca":false},{"name":"Cornelius Veth","is_ca":false},{"name":"Annelie Pernthaler","is_ca":false},{"name":"Jakob Pernthaler","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003381290299401925,"gpt":0.1753273848869095,"spread":0.1719460945875076,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002616544,0.0001186166,0.0001692664,0.00002894947,0.0001092292,0.000002555615,0.0001724725,0.00009863302,0.0003905565],"category_scores_gemma":[0.000007992797,0.00009209272,0.00002318811,0.00008112918,0.0004704627,0.00003818415,0.0002204827,0.0001788136,0.0001694495],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006514465,"about_ca_system_score_gemma":0.000002131957,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007136044,"about_ca_topic_score_gemma":0.0005108668,"domain_scores_codex":[0.9991542,0.0001311846,0.0001986256,0.0002406241,0.00002845247,0.0002469593],"domain_scores_gemma":[0.9996693,0.00005677508,0.00005539356,0.0001875838,8.002763e-7,0.00003010856],"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":[0.00006957095,0.0001973953,0.02607207,0.000003471633,0.000006671085,6.551459e-7,0.001289512,0.0008376592,0.9691219,0.0001356245,0.0006258764,0.00163963],"study_design_scores_gemma":[0.002061217,0.0009583145,0.8360719,0.00001721832,0.00006365949,0.0006267326,0.00175196,0.0001123455,0.127492,0.001662065,0.02844524,0.0007373854],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998302,0.00003622183,0.0000201125,0.0008234964,0.00004288626,0.0004731594,0.000008625735,0.000006580931,0.0002869474],"genre_scores_gemma":[0.998697,0.000031917,0.0001416598,0.0008883346,0.00003288829,0.00001553405,0.0001630628,0.000005541673,0.00002399986],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8416299,"threshold_uncertainty_score":0.427632,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2016488959","doi":"10.1128/aem.00242-14","title":"Microbiota of Human Breast Tissue","year":2014,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":561,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Ottawa Regional Cancer Foundation; Lawson Health Research Institute; Western University","funders":"Canadian Institutes of Health Research; University College Cork; London Health Sciences Centre","keywords":"Biology; Gammaproteobacteria; Citrobacter; Propionibacterium; Microbiology; Population; Klebsiella; Staphylococcus; Prevotella; Bacteria; Enterobacteriaceae; Staphylococcus aureus; 16S ribosomal RNA; Escherichia coli; Medicine; Genetics","authors":[{"name":"Camilla Urbaniak","is_ca":true},{"name":"Joanne Cummins","is_ca":false},{"name":"Muriel Brackstone","is_ca":true},{"name":"Jean M. Macklaim","is_ca":true},{"name":"Gregory B. Gloor","is_ca":true},{"name":"Chwanrow Baban","is_ca":false},{"name":"Leslie Scott","is_ca":true},{"name":"Deidre M. O'Hanlon","is_ca":false},{"name":"Jeremy P. Burton","is_ca":true},{"name":"Kevin P. Francis","is_ca":false},{"name":"Mark Tangney","is_ca":false},{"name":"Gregor Reid","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.002481868169393923,"gpt":0.191679813001963,"spread":0.1891979448325691,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008948419,0.0001557557,0.0001981749,0.00002950464,0.00008524911,0.000004082,0.0001159076,0.0001890727,0.00007006161],"category_scores_gemma":[9.58284e-7,0.0001491993,0.00003335101,0.00001938034,0.0003251256,0.000001173155,0.0001559017,0.00007031886,0.00002624184],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008801431,"about_ca_system_score_gemma":0.000006748602,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001835295,"about_ca_topic_score_gemma":0.000007290505,"domain_scores_codex":[0.9991807,0.000032056,0.000199597,0.0003354285,0.00001552318,0.0002367126],"domain_scores_gemma":[0.9996236,0.000005691664,0.00008083247,0.0002261688,0.000002644986,0.00006107149],"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":[0.00001753455,0.00006514433,0.001476992,0.00002050021,0.00001901627,1.680496e-7,0.00002959251,0.000001592359,0.9954969,0.0003184122,0.0006843643,0.001869788],"study_design_scores_gemma":[0.0008457825,0.0003602564,0.01827518,0.000006152685,0.00001769172,0.0001875964,0.00007852539,8.761817e-7,0.9189724,0.00006161683,0.06095401,0.0002398956],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9982764,0.000214814,0.0001013733,0.00005479495,0.00004365931,0.0001366719,0.000136446,0.000005891638,0.001029923],"genre_scores_gemma":[0.9980993,0.00009608452,0.0002462867,0.0003490904,0.00008489836,0.000005341707,0.0008406736,0.00001852884,0.000259834],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.07652447,"threshold_uncertainty_score":0.6084171,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2118805758","doi":"10.1128/aem.00739-09","title":"Rumen Microbiome Composition Determined Using Two Nutritional Models of Subacute Ruminal Acidosis","year":2009,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Ruminant Nutrition and Digestive Physiology","field":"Agricultural and Biological Sciences","cited_by":521,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Manitoba","funders":"Natural Sciences and Engineering Research Council of Canada; Dairy Farmers of Canada","keywords":"Rumen; Bacteroidetes; Prevotella; Biology; Microbiome; Firmicutes; Acidosis; Animal science; Microbiology; Streptococcus bovis; Food science; 16S ribosomal RNA; Bacteria; Endocrinology; Fermentation; Bioinformatics","authors":[{"name":"Ehsan Khafipour","is_ca":true},{"name":"Shucong Li","is_ca":true},{"name":"Jan C. Plaizier","is_ca":true},{"name":"Denis O. Krause","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01354078141929233,"gpt":0.1993522496740056,"spread":0.1858114682547133,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00004859971,0.0001633829,0.000251484,0.00002299701,0.0001354611,0.000008534988,0.00009959356,0.0001071882,0.0001264542],"category_scores_gemma":[3.76391e-7,0.00008721707,0.00006529927,0.0000646635,0.0002639874,0.00006592024,0.000052894,0.00006818363,0.000009013357],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002905359,"about_ca_system_score_gemma":0.000002198403,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001639188,"about_ca_topic_score_gemma":0.000001947092,"domain_scores_codex":[0.9991576,0.00003882941,0.0002281964,0.0002997803,0.00003290928,0.0002426616],"domain_scores_gemma":[0.9997495,0.00004395728,0.0001004435,0.00004021334,0.000005112962,0.00006070286],"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":[0.0001251853,0.0002687307,0.0002733109,0.000003415527,0.000009418687,0.000001572421,0.00001755035,0.00001075127,0.9923703,0.0005492162,0.00002707184,0.006343462],"study_design_scores_gemma":[0.001927108,0.0009824295,0.07970129,0.00002912827,0.00006052847,0.0004015463,0.0002391769,0.000318393,0.9065773,0.007981245,0.001230994,0.0005508603],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987206,0.0001826467,0.00003169475,0.0002552643,0.00002419787,0.0001742281,0.0004280611,0.0000156784,0.0001676509],"genre_scores_gemma":[0.9976478,0.0001256073,0.0006188208,0.0004225194,0.00005919726,0.000005838698,0.001110262,0.000001122787,0.000008799964],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08579302,"threshold_uncertainty_score":0.3556609,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2100338956","doi":"10.1128/aem.68.11.5537-5548.2002","title":"Robust Hydrocarbon Degradation and Dynamics of Bacterial Communities during Nutrient-Enhanced Oil Spill Bioremediation","year":2002,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":496,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Bedford Institute of Oceanography","funders":"Biotechnology and Biological Sciences Research Council","keywords":"Microcosm; Bioremediation; Temperature gradient gel electrophoresis; Nutrient; Biology; Microbial population biology; Environmental chemistry; Biodegradation; Ecology; Bacteria; Chemistry; 16S ribosomal RNA; Contamination","authors":[{"name":"Wilfred F. M. Röling","is_ca":false},{"name":"Michael G. Milner","is_ca":false},{"name":"D. M. Jones","is_ca":false},{"name":"Kenneth Lee","is_ca":true},{"name":"Fabien Daniel","is_ca":false},{"name":"Richard Swannell","is_ca":false},{"name":"Ian M. Head","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00806162207951596,"gpt":0.1532896805108165,"spread":0.1452280584313005,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00007650695,0.0001527599,0.0001674146,0.00003563256,0.00008778492,0.0000115517,0.00008006844,0.0001190774,0.001115568],"category_scores_gemma":[0.000002194661,0.0001443948,0.00002026284,0.0000492869,0.0004440055,0.00006846451,0.0001706805,0.00008791415,0.00004547048],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008837209,"about_ca_system_score_gemma":0.000001055673,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005940531,"about_ca_topic_score_gemma":0.0001887582,"domain_scores_codex":[0.9992869,0.00004158101,0.0002314468,0.0002095506,0.00005059966,0.000179904],"domain_scores_gemma":[0.9996727,0.00002433257,0.0001334706,0.0001168857,9.768646e-7,0.0000515994],"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":[0.00002706523,0.00006333589,0.005132647,0.00001114315,0.000007821926,2.250504e-7,0.0006321566,0.00001772402,0.991006,0.00004879423,0.000024366,0.003028683],"study_design_scores_gemma":[0.004141281,0.0002577193,0.08362507,0.00002994068,0.00006176229,0.00005084424,0.0029467,0.001586873,0.9048893,0.0001265731,0.001462564,0.0008213671],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9985587,0.00004985222,0.00003640591,0.00009123789,0.00007048552,0.0001019629,0.0001121357,0.0000152581,0.0009639821],"genre_scores_gemma":[0.9974135,0.001460505,0.0002670338,0.00009402195,0.0000155597,0.000003919547,0.0006362215,0.00001057634,0.00009872233],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08611674,"threshold_uncertainty_score":0.9997975,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2097947675","doi":"10.1128/aem.69.9.5157-5169.2003","title":"Cyanobacterial Diversity in Natural and Artificial Microbial Mats of Lake Fryxell (McMurdo Dry Valleys, Antarctica): a Morphological and Molecular Approach","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Polar Research and Ecology","field":"Environmental Science","cited_by":475,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"University of Warwick; British Antarctic Survey; European Commission; Université Laval","keywords":"Phylotype; Biology; Temperature gradient gel electrophoresis; Microbial mat; Internal transcribed spacer; Cyanobacteria; 16S ribosomal RNA; Extreme environment; Phylogenetic diversity; Phylogenetics; Phylogenetic tree; Botany; Gene; Bacteria; Genetics","authors":[{"name":"Arnaud Taton","is_ca":false},{"name":"Stana Grubisic","is_ca":false},{"name":"Evelyne Brambilla","is_ca":false},{"name":"Rutger de Wit","is_ca":false},{"name":"Annick Wilmotte","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007373354549161173,"gpt":0.1811112277945049,"spread":0.1737378732453437,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002196108,0.0001835379,0.0002863949,0.00004274468,0.0001399502,0.00001070805,0.0001106947,0.0001926183,0.0004977382],"category_scores_gemma":[0.000009044414,0.0001678034,0.00002824019,0.00005038228,0.001359285,0.00005182326,0.0008226719,0.000226569,0.00002138628],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005110594,"about_ca_system_score_gemma":0.000004318415,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001385264,"about_ca_topic_score_gemma":0.0001850284,"domain_scores_codex":[0.9987015,0.0001229664,0.0002021499,0.0004917734,0.00005354606,0.0004280875],"domain_scores_gemma":[0.9996798,0.0000399351,0.00005373008,0.0001147099,6.06185e-7,0.0001111919],"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":[0.0001365648,0.0001762739,0.0836032,0.000008798365,0.00001449542,0.00002398916,0.0001504258,0.000004478503,0.9152152,0.0001757784,0.00002464226,0.0004661755],"study_design_scores_gemma":[0.005337148,0.0007274803,0.7343655,0.00000946299,0.00007116632,0.00109881,0.001079342,0.00009810305,0.2474252,0.002785368,0.005948866,0.001053554],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987975,0.0001099541,0.0000320165,0.00003800238,0.00004373954,0.0002689994,0.00005740076,0.000006435646,0.0006459916],"genre_scores_gemma":[0.9985372,0.0001535987,0.00097226,0.0002171373,0.000009503628,0.000007454064,0.00007958752,0.000008664882,0.00001454025],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6677899,"threshold_uncertainty_score":0.6842825,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2142176767","doi":"10.1128/aem.72.4.2765-2774.2006","title":"Quantitative PCR Targeting 16S rRNA and Reductive Dehalogenase Genes Simultaneously Monitors Multiple<i>Dehalococcoides</i>Strains","year":2006,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":474,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"University of Toronto; U.S. Department of Energy; Environmental Security Technology Certification Program; National Science Foundation","keywords":"Dehalococcoides; Biology; Dehalogenase; 16S ribosomal RNA; Gene; Microbiology; Ribosomal RNA; Computational biology; Genetics; Chemistry","authors":[{"name":"Kirsti M. Ritalahti","is_ca":false},{"name":"Benjamin K. Amos","is_ca":false},{"name":"Youlboong Sung","is_ca":false},{"name":"Qingzhong Wu","is_ca":false},{"name":"Stephen S. Koenigsberg","is_ca":false},{"name":"Frank E. Löffler","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005327945064705403,"gpt":0.1823404234369279,"spread":0.1770124783722225,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0001370422,0.000319117,0.0002626568,0.00003836811,0.0002724479,0.00002668905,0.0001218068,0.0001960409,0.0003564331],"category_scores_gemma":[0.00001030452,0.0002855858,0.00004410588,0.00007591682,0.001075408,0.00007971639,0.0002249762,0.0001591271,0.0002102057],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001198521,"about_ca_system_score_gemma":0.000004759796,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003085818,"about_ca_topic_score_gemma":0.0001172491,"domain_scores_codex":[0.9984325,0.00006060681,0.0003348885,0.0006579079,0.00006992714,0.0004441592],"domain_scores_gemma":[0.9995029,0.00009880777,0.000148872,0.0001300094,0.000002084035,0.0001173286],"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":[0.00004852045,0.0001065185,0.02841238,0.000004845469,0.00001681325,0.00001215677,0.0002479927,0.0001675948,0.9681674,0.0000432942,0.0004835609,0.002288917],"study_design_scores_gemma":[0.002776357,0.0003939428,0.09158764,0.00001291293,0.00008061848,0.0002489333,0.003928065,0.0004356104,0.8790371,0.000375508,0.01974757,0.001375764],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9980551,0.0004070308,0.00005109074,0.00009608739,0.0001015017,0.000394416,0.0003063691,0.00003905414,0.0005493362],"genre_scores_gemma":[0.9964138,0.000296921,0.002436631,0.0002181412,0.00006500186,0.00001193104,0.000402092,0.00002516294,0.0001303796],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08913033,"threshold_uncertainty_score":0.9999596,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2089719624","doi":"10.1128/aem.02250-06","title":"Biochemical and Ecological Control of Geosmin and 2-Methylisoborneol in Source Waters","year":2007,"lang":"en","type":"review","venue":"Applied and Environmental Microbiology","topic":"Aquatic Ecosystems and Phytoplankton Dynamics","field":"Environmental Science","cited_by":457,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Environment and Climate Change Canada","funders":"","keywords":"Geosmin; Odor; Water source; Ecology; Environmental science; Taste; Environmental chemistry; Biology; Chemistry; Food science; Water resource management","authors":[{"name":"Friedrich Jüttner","is_ca":false},{"name":"Susan B. Watson","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007908369491712232,"gpt":0.2130865605321305,"spread":0.2051781910404182,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0002950497,0.0003345413,0.001080217,0.000054693,0.00004074887,0.000006635737,0.000116034,0.0005184461,0.0001279265],"category_scores_gemma":[0.000003861947,0.0002551845,0.00005814223,0.00004826833,0.0008667663,0.00001732665,0.0002453697,0.0002707099,0.00002698308],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008288403,"about_ca_system_score_gemma":0.000004006195,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005001437,"about_ca_topic_score_gemma":0.00001535062,"domain_scores_codex":[0.998495,0.00007129438,0.0005236266,0.000543325,0.00004138277,0.0003253964],"domain_scores_gemma":[0.9993312,0.0002323146,0.0001958619,0.0001416654,2.883253e-7,0.00009866893],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00005669417,0.0003037317,0.01492562,0.002547183,0.0001383551,0.00002389677,0.0003050863,0.00001145598,0.03554364,0.0002336959,0.0001466974,0.9457639],"study_design_scores_gemma":[0.001487714,0.0002054677,0.00306463,0.0003991167,0.0002502266,0.0004757886,0.0001674127,0.00007318366,0.000117198,0.0001035326,0.9928698,0.0007859401],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.2636729,0.7346293,0.0001354626,0.0000095212,0.00004085946,0.0008872965,0.0002436627,0.000009330794,0.0003716808],"genre_scores_gemma":[0.2651332,0.7343054,0.0001984666,0.00007642859,0.00001557385,0.00003308589,0.0001714336,0.0000203521,0.00004598252],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.9927231,"threshold_uncertainty_score":0.99999,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1996834987","doi":"10.1128/aem.70.4.1999-2012.2004","title":"Evolution of the Core Genome of <i>Pseudomonassyringae</i> , a Highly Clonal, Endemic PlantPathogen","year":2004,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":456,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Genetics; Multilocus sequence typing; Phylogenetic tree; Population; Pseudomonas syringae; Genome; Genetic variation; Housekeeping gene; Evolutionary biology; Gene; Genotype","authors":[{"name":"Sara F. Sarkar","is_ca":true},{"name":"David S. Guttman","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007263848878670805,"gpt":0.1493765331676343,"spread":0.1421126842889635,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00006648112,0.0001115334,0.0001901154,0.000005776682,0.00008724159,0.000001559664,0.000156534,0.0000931092,0.00001906728],"category_scores_gemma":[0.000001807264,0.00004239311,0.00005200786,0.00004899671,0.0003609261,0.00001389701,0.0001910825,0.00006768083,0.000005697248],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004097575,"about_ca_system_score_gemma":0.000004293806,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004463191,"about_ca_topic_score_gemma":0.00003916142,"domain_scores_codex":[0.9993985,0.00001690372,0.0001922095,0.0001940923,0.00003635785,0.0001619566],"domain_scores_gemma":[0.9997543,0.00004055261,0.0001300161,0.00005042729,0.000001906614,0.0000227722],"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":[0.00002797547,0.00005087494,0.00902927,0.000004936007,0.00001727225,5.193323e-7,0.0000566337,0.000008331392,0.9899741,0.0005440086,0.000007738278,0.0002782884],"study_design_scores_gemma":[0.0005965498,0.0001874639,0.7148318,0.00001725989,0.00004310096,0.0002033972,0.0004377699,6.05153e-7,0.2787875,0.001044243,0.003643623,0.0002067055],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9977049,0.0006068031,0.000001453369,0.00007398001,0.00004712394,0.000159518,0.001283114,0.000007490321,0.0001156646],"genre_scores_gemma":[0.9994194,0.000238836,0.0000632712,0.00006187447,0.00003199533,0.000008246708,0.0001649591,8.498268e-7,0.0000105588],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7111866,"threshold_uncertainty_score":0.1728741,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2002110057","doi":"10.1128/aem.01682-13","title":"Impact of Manure Fertilization on the Abundance of Antibiotic-Resistant Bacteria and Frequency of Detection of Antibiotic Resistance Genes in Soil and on Vegetables at Harvest","year":2013,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Pharmaceutical and Antibiotic Environmental Impacts","field":"Environmental Science","cited_by":453,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Western University; Agriculture and Agri-Food Canada","funders":"Agriculture and Agri-Food Canada","keywords":"Manure; Bacteria; Antibiotic resistance; Biology; Antibiotics; Fertilizer; Biotechnology; Agronomy; Food science; Veterinary medicine; Microbiology; Medicine","authors":[{"name":"Romain Marti","is_ca":true},{"name":"Andrew Scott","is_ca":true},{"name":"Yuan-Ching Tien","is_ca":true},{"name":"Roger Murray","is_ca":true},{"name":"Lyne Sabourin","is_ca":true},{"name":"Yun Zhang","is_ca":true},{"name":"Edward Topp","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00860825209269922,"gpt":0.2090504641914946,"spread":0.2004422120987954,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001008088,0.0001848374,0.0003046545,0.00003966087,0.00005236494,0.00000574347,0.0000897456,0.0001000698,0.0001368268],"category_scores_gemma":[0.000007034688,0.0001274155,0.00003533166,0.00006884524,0.001299549,0.0000799856,0.0001387107,0.00007925498,0.000007130828],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007063952,"about_ca_system_score_gemma":0.000002344951,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002043243,"about_ca_topic_score_gemma":0.00009213706,"domain_scores_codex":[0.9990476,0.00005036276,0.000338347,0.0002928541,0.00007147585,0.0001993446],"domain_scores_gemma":[0.9994649,0.00008783761,0.0002215393,0.000167859,0.0000011999,0.0000566573],"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":[0.0001199524,0.0001859564,0.1766545,0.00006136051,0.00001790867,3.827304e-7,0.0000892663,0.00004660044,0.8215904,0.00005337444,0.000003452926,0.001176872],"study_design_scores_gemma":[0.0002759204,0.0001896822,0.5188837,0.00004151984,0.000009717221,0.00000297361,0.00005517708,0.00001859212,0.4803708,0.00007966923,0.000005675554,0.00006660829],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988943,0.0003492542,0.000004131346,0.00003806357,0.00001480386,0.0002957697,0.0001088852,0.000002513779,0.0002922315],"genre_scores_gemma":[0.9991863,0.000646755,0.0000659207,0.00003295272,0.000003273752,0.000001230294,0.00001793975,0.00001106903,0.00003449329],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3422292,"threshold_uncertainty_score":0.5195854,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2103183006","doi":"10.1128/aem.69.6.3085-3092.2003","title":"Characterization of Hydrocarbon-Degrading Microbial Populations in Contaminated and Pristine Alpine Soils","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":451,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University; Biotechnology Research Institute","funders":"","keywords":"AlkB; Pseudomonas putida; Rhodococcus; Acinetobacter; Biology; Bacteria; Soil contamination; Microbiology; Microorganism; Contamination; Environmental chemistry; Chemistry; Gene; Ecology; Biochemistry","authors":[{"name":"Rosa Margesin","is_ca":false},{"name":"Diane Labbé","is_ca":true},{"name":"Franz Schinner","is_ca":false},{"name":"Charles W. Greer","is_ca":true},{"name":"Lyle G. Whyte","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008118963309509576,"gpt":0.1846102678683763,"spread":0.1764913045588667,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001150914,0.0001385911,0.0001905264,0.00004467279,0.00005064802,0.000005759407,0.00004724872,0.0001118588,0.0003581923],"category_scores_gemma":[0.000004582372,0.0001325287,0.00001542778,0.00008265695,0.0002870889,0.00004492541,0.00006552957,0.00007580693,0.00002105408],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005255049,"about_ca_system_score_gemma":0.000002774112,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000425984,"about_ca_topic_score_gemma":0.00006468092,"domain_scores_codex":[0.9991942,0.00003492248,0.0002742897,0.0002776659,0.0000294002,0.0001894962],"domain_scores_gemma":[0.9997502,0.00001142777,0.0001091745,0.00008013561,6.517187e-7,0.00004844229],"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":[0.00001226623,0.00006003132,0.1024308,0.000004583622,0.000003577982,7.007894e-7,0.0001382582,0.000002069841,0.8965724,0.0001294133,0.00001128431,0.000634604],"study_design_scores_gemma":[0.001215018,0.00005676375,0.4583298,0.000009495379,0.0000137112,0.00004200518,0.00008965311,0.00003880882,0.5377817,0.00008372861,0.002102311,0.0002370287],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990548,0.00002759751,0.00003804319,0.00004080235,0.00004923956,0.0002323733,0.00006268714,0.000008168804,0.0004862229],"genre_scores_gemma":[0.9989985,0.0001067543,0.0003504307,0.0001412394,0.000005998641,0.000003988281,0.000320337,0.000009109342,0.00006359378],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3587907,"threshold_uncertainty_score":0.5404363,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1995400078","doi":"10.1128/aem.68.2.485-495.2002","title":"Molecular Analysis of <i>Dehalococcoides</i> 16S Ribosomal DNA from Chloroethene-Contaminated Sites throughout North America and Europe","year":2002,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":450,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"University of Toronto; McMaster University","keywords":"Dehalococcoides; 16S ribosomal RNA; Biology; Phylotype; Reductive dechlorination; Bioremediation; Phylogenetic tree; Environmental DNA; Ribosomal DNA; Ribosomal RNA; Genetics; Microbiology; Gene; Bacteria; Contamination; Ecology; Chemistry; Biodiversity","authors":[{"name":"Edwin R. Hendrickson","is_ca":false},{"name":"Jo Ann Payne","is_ca":false},{"name":"Roslyn M. Young","is_ca":false},{"name":"Mark G. Starr","is_ca":false},{"name":"M. P. Perry","is_ca":false},{"name":"Stephen R. Fahnestock","is_ca":false},{"name":"D.E. Ellis","is_ca":false},{"name":"Richard C. Ebersole","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004996966476312783,"gpt":0.1672638565825381,"spread":0.1622668901062253,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00003604452,0.0002345481,0.0003794204,0.0000534315,0.00007921592,0.00001220874,0.0001465109,0.0001120802,0.003330159],"category_scores_gemma":[0.000003497333,0.0002067241,0.00006207691,0.0002459296,0.0008036129,0.00005081059,0.0002647165,0.0001009685,0.0002904404],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003419541,"about_ca_system_score_gemma":0.000001034768,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001595527,"about_ca_topic_score_gemma":0.000105858,"domain_scores_codex":[0.9987962,0.0000504289,0.0002963667,0.0005200133,0.00006692598,0.0002700284],"domain_scores_gemma":[0.9994945,0.0000445095,0.000158097,0.0002044329,0.000001376573,0.0000970984],"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":[0.00001634678,0.00009950619,0.1075745,0.000001868986,0.0001580767,0.000004524579,0.0003683051,0.00004104643,0.8887322,0.000003728891,0.0001448968,0.002855039],"study_design_scores_gemma":[0.001211466,0.0001688823,0.4944956,0.000003119744,0.0006628249,0.00001091493,0.000297777,0.0005788211,0.4873945,0.00001777538,0.01454394,0.0006143847],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9977905,0.0002485655,0.00003289329,0.00006450497,0.0000224358,0.0001747226,0.0007229169,0.00001932035,0.0009240984],"genre_scores_gemma":[0.9971512,0.0007507591,0.0002436008,0.0008129572,0.000009004035,0.000004065196,0.0009601823,0.00001461724,0.00005359934],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4013377,"threshold_uncertainty_score":0.9975809,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2177704324","doi":"10.1128/aem.70.1.52-60.2004","title":"Structural and Spectral Features of Selenium Nanospheres Produced by Se-Respiring Bacteria","year":2004,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Selenium in Biological Systems","field":"Nursing","cited_by":442,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph","funders":"","keywords":"Selenium; Selenate; Extracellular; Electron acceptor; Chemistry; Bacteria; Raman spectroscopy; Intracellular; Electron donor; Biophysics; Biochemistry; Biology; Organic chemistry; Catalysis","authors":[{"name":"Ronald S. Oremland","is_ca":false},{"name":"Mitchell J. Herbel","is_ca":false},{"name":"Jodi Switzer Blum","is_ca":false},{"name":"S. Langley","is_ca":true},{"name":"Terry J. Beveridge","is_ca":true},{"name":"Pulickel M. Ajayan","is_ca":false},{"name":"Thomas E. Sutto","is_ca":false},{"name":"Amanda Ellis","is_ca":false},{"name":"Seamus A. Curran","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005606092655820396,"gpt":0.1917972589286539,"spread":0.1861911662728335,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00005617144,0.0002116368,0.000295948,0.00001745958,0.00009179905,0.00001299542,0.00009715494,0.0001967267,0.00005629663],"category_scores_gemma":[0.000003483551,0.0001653588,0.00002963122,0.00002981439,0.0004110727,0.00003230466,0.00009139509,0.0001388239,0.000006241313],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000566328,"about_ca_system_score_gemma":0.000002206803,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009836148,"about_ca_topic_score_gemma":0.000007592103,"domain_scores_codex":[0.998971,0.0000358613,0.0002295883,0.0004260906,0.00003161485,0.0003058126],"domain_scores_gemma":[0.9996794,0.00003064968,0.0001000511,0.0001292128,0.00000148765,0.00005913853],"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":[0.0001588071,0.00002648409,0.006198998,0.00002479291,0.00002295102,3.056262e-7,0.0002301271,0.000004220851,0.9923664,0.00009719123,0.0001151258,0.0007545465],"study_design_scores_gemma":[0.0008501686,0.0002059351,0.0639477,0.000009038333,0.00001605012,0.0001007162,0.0001986526,3.663611e-7,0.9333601,0.0001823853,0.0009299278,0.0001989689],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9980873,0.001045892,0.000001452685,0.0001453178,0.0002169141,0.0002970331,0.00008754066,0.0000307787,0.00008771813],"genre_scores_gemma":[0.9992039,0.00003162341,0.0003689222,0.0001575693,0.00008605681,0.000009454549,0.0001076623,0.00001696237,0.00001786022],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05900636,"threshold_uncertainty_score":0.6743135,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2135642891","doi":"10.1128/aem.70.10.5750-5755.2004","title":"Mechanisms of Bactericidal Action of Cinnamaldehyde against <i>Listeria monocytogenes</i> and of Eugenol against <i>L. monocytogenes</i> and <i>Lactobacillus sakei</i>","year":2004,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Essential Oils and Antimicrobial Activity","field":"Agricultural and Biological Sciences","cited_by":431,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Manitoba","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Eugenol; Cinnamaldehyde; Lactobacillus sakei; Listeria monocytogenes; Chemistry; Extracellular; Microbiology; Biochemistry; Bacteria; Lactobacillus; Biology; Organic chemistry; Fermentation","authors":[{"name":"Alexander Gill","is_ca":true},{"name":"Richard A. Holley","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01183410003005163,"gpt":0.1812741075688684,"spread":0.1694400075388167,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009269972,0.0002326003,0.0004747036,0.00001964426,0.00009569867,0.000009614114,0.000100461,0.0001947315,0.0000163626],"category_scores_gemma":[0.000001568487,0.0001286781,0.00006528545,0.00007448741,0.0004563938,0.00006965153,0.0002129577,0.00008455173,0.000001082618],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002405826,"about_ca_system_score_gemma":0.000005447044,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000220722,"about_ca_topic_score_gemma":0.0001127999,"domain_scores_codex":[0.9989389,0.00003487191,0.0003656388,0.000379137,0.00004895152,0.0002324728],"domain_scores_gemma":[0.9995222,0.0000402518,0.0002860677,0.0000696518,0.000007257429,0.00007458762],"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":[0.0001205584,0.0001597712,0.0006615236,0.00005301685,0.0000348217,0.000001215423,0.00005927558,0.00001159657,0.9796866,0.0001650974,0.000003375715,0.01904318],"study_design_scores_gemma":[0.0006429655,0.0002741797,0.01012279,0.0000226029,0.00003229097,0.00002697776,0.0003327103,0.000002397738,0.9876751,0.0002487715,0.0004183033,0.0002009079],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9985943,0.0002454477,0.00005806977,0.00009365438,0.00005650333,0.0002342805,0.0005800748,0.00001017776,0.0001274219],"genre_scores_gemma":[0.9973804,0.001814028,0.0002997496,0.0002645275,0.000024553,0.000005687853,0.0002008133,0.000003680686,0.000006584787],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01884227,"threshold_uncertainty_score":0.5247341,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1968289569","doi":"10.1128/aem.71.12.8201-8206.2005","title":"Distribution of Typical Freshwater Bacterial Groups Is Associated with pH, Temperature, and Lake Water Retention Time","year":2005,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":428,"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":"","keywords":"Betaproteobacteria; Actinobacteria; Verrucomicrobia; Ecology; Taxon; Proteobacteria; Biology; Environmental science; Bacteria","authors":[{"name":"Eva S. Lindström","is_ca":true},{"name":"Miranda P. Kamst‐van Agterveld","is_ca":false},{"name":"Gabriël Zwart","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.002928004983571202,"gpt":0.1503245137742725,"spread":0.1473965087907013,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0001104569,0.0001535545,0.0002203208,0.00001231127,0.0001475619,0.00000636613,0.00008351243,0.0002448901,0.008041676],"category_scores_gemma":[0.000001468198,0.0001080302,0.00002323922,0.00002220785,0.0007742431,0.00005842961,0.0002343232,0.0001691548,0.0001829122],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004146372,"about_ca_system_score_gemma":0.000001395008,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000008982802,"about_ca_topic_score_gemma":0.0003726802,"domain_scores_codex":[0.999214,0.00008502708,0.0001689152,0.0002622558,0.0000249052,0.0002449009],"domain_scores_gemma":[0.9997485,0.00002768797,0.00005444012,0.0001237526,0.000001117966,0.00004445816],"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":[0.0002133032,0.0001107068,0.003236835,0.00000247453,0.00003116243,6.556524e-7,0.0002077499,0.000005411491,0.994155,0.00001813606,0.001766239,0.0002523653],"study_design_scores_gemma":[0.003849898,0.0009707775,0.2762497,0.00001814264,0.0001388889,0.0001822494,0.00010681,0.00004333775,0.6141439,0.000594798,0.1029503,0.0007512278],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990209,0.00001254984,0.000003504639,0.0001451193,0.00002384566,0.000149481,0.0004777392,0.00001129214,0.0001555317],"genre_scores_gemma":[0.9933035,0.00002983897,0.00006054197,0.0003290085,0.00002565034,0.000007294944,0.006052022,0.000009082769,0.000183047],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.380011,"threshold_uncertainty_score":0.9928651,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2168454395","doi":"10.1128/aem.67.3.1076-1084.2001","title":"Chromate Reduction by a Pseudomonad Isolated from a Site Contaminated with Chromated Copper Arsenate","year":2001,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Chromium effects and bioremediation","field":"Environmental Science","cited_by":397,"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","keywords":"Chromate conversion coating; Arsenate; Chemistry; Chromated copper arsenate; Anaerobic exercise; Nuclear chemistry; Copper; Metal; Chromium; Inorganic chemistry; Arsenic; Biology; Organic chemistry","authors":[{"name":"J. K. McLean","is_ca":true},{"name":"Terry J. Beveridge","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.001777823952678146,"gpt":0.150161287899186,"spread":0.1483834639465078,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00007069921,0.0002761136,0.0002504967,0.00002665372,0.000159524,0.00002284176,0.00009068877,0.0001914964,0.001214575],"category_scores_gemma":[8.947717e-7,0.0002169888,0.00002610168,0.0001095382,0.000502441,0.000100117,0.0001153682,0.0001296559,0.0004545436],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001801935,"about_ca_system_score_gemma":0.000003123194,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000664064,"about_ca_topic_score_gemma":0.00006770108,"domain_scores_codex":[0.9987311,0.0000455546,0.0002136207,0.0005759926,0.00007212131,0.0003615625],"domain_scores_gemma":[0.999575,0.00002431466,0.0001180869,0.0001746967,0.000001023246,0.0001068718],"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":[0.000218101,0.0001219773,0.008262413,0.000002232448,0.00003590282,0.00001413366,0.0002154775,0.00002051403,0.9873685,0.000001930404,0.00167476,0.002064083],"study_design_scores_gemma":[0.0110628,0.001614027,0.1722669,0.00004927792,0.0002670807,0.001491027,0.0007938206,0.002262722,0.7597877,0.0001197575,0.04829827,0.001986694],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998339,0.000112461,0.0000501637,0.0001162933,0.00006168065,0.0004040922,0.0002015141,0.00007867887,0.000636097],"genre_scores_gemma":[0.9967445,0.0002719828,0.0001118433,0.0002603606,0.00003302496,0.00003187952,0.002317264,0.0000274318,0.000201768],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2275808,"threshold_uncertainty_score":0.9996985,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2166618055","doi":"10.1128/aem.69.12.7343-7353.2003","title":"Concomitant Induction of Systemic Resistance to <i>Pseudomonas syringae</i> pv. <i>lachrymans</i> in Cucumber by <i>Trichoderma asperellum</i> (T-203) and Accumulation ofPhytoalexins","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Plant-Microbe Interactions and Immunity","field":"Agricultural and Biological Sciences","cited_by":389,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Université Laval","funders":"United States - Israel Binational Agricultural Research and Development Fund","keywords":"Pseudomonas syringae; Phenylalanine ammonia-lyase; Biology; Phenylpropanoid; Pseudomonas; Rhizobacteria; Microbiology; Systemic acquired resistance; Botany; Rhizosphere; Bacteria; Biochemistry; Phenylalanine; Enzyme; Gene; Biosynthesis; Pathogen","authors":[{"name":"Iris Yedidia","is_ca":false},{"name":"Michal Shoresh","is_ca":false},{"name":"Zohar Kerem","is_ca":false},{"name":"Nicole Benhamou","is_ca":true},{"name":"Yoram Kapulnik","is_ca":false},{"name":"I. Chet","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01058042699554276,"gpt":0.1953850438486802,"spread":0.1848046168531374,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001389151,0.0001578335,0.0002384816,0.00002160277,0.0001050864,0.00001374816,0.00007675079,0.000136391,0.0000439727],"category_scores_gemma":[0.000005329536,0.00008922179,0.0000227646,0.000111442,0.0001124941,0.00007129628,0.00005462348,0.0001468953,0.0000116215],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000523558,"about_ca_system_score_gemma":0.000002671292,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001511918,"about_ca_topic_score_gemma":0.0002267672,"domain_scores_codex":[0.9990734,0.00008556196,0.0002907665,0.0003040189,0.00003388624,0.0002122918],"domain_scores_gemma":[0.9996736,0.0001033003,0.0001037479,0.00006055098,0.000004004974,0.00005479128],"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":[0.00005058572,0.00008782261,0.009860121,0.00001011808,0.000008582157,7.539984e-7,0.0001184534,0.000007350797,0.9881188,0.00008451397,0.0005383446,0.00111459],"study_design_scores_gemma":[0.001498722,0.0003317905,0.04531442,0.0001430676,0.00003748175,0.0003903044,0.003114563,0.00001156407,0.8597088,0.0002233338,0.08851801,0.0007079419],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9977757,0.0008313095,0.00001520907,0.00008639817,0.00005647515,0.0002825762,0.0002180659,0.00001042683,0.0007238467],"genre_scores_gemma":[0.9986657,0.0005965534,0.00007532438,0.0002552153,0.00001466329,0.00001995857,0.0001840309,0.000002075418,0.0001865153],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.12841,"threshold_uncertainty_score":0.3638359,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2120918440","doi":"10.1128/aem.66.8.3214-3220.2000","title":"Microbial Life beneath a High Arctic Glacier","year":2000,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Polar Research and Ecology","field":"Environmental Science","cited_by":384,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta","funders":"","keywords":"Glacier; Arctic; Psychrophile; Geology; Snow; Permafrost; Oceanography; Environmental chemistry; Ecology; Biology; Chemistry; Geomorphology; Paleontology; Bacteria","authors":[{"name":"Mark Skidmore","is_ca":true},{"name":"Julia M. Foght","is_ca":true},{"name":"Martin Sharp","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003235427721422394,"gpt":0.1653007000066201,"spread":0.1620652722851977,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":["insufficient_payload"],"category_scores_codex":[0.0001159831,0.000208216,0.0002228439,0.00002609828,0.0002151582,0.00001698159,0.0002054748,0.0001665977,0.05538658],"category_scores_gemma":[0.000003779687,0.000189765,0.00004409978,0.00005771369,0.0008252539,0.0000650669,0.0002534699,0.000205963,0.006586596],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001284524,"about_ca_system_score_gemma":0.000006425871,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003407511,"about_ca_topic_score_gemma":0.00007321491,"domain_scores_codex":[0.9985546,0.00004806456,0.0001921677,0.0005121731,0.00005372344,0.0006392481],"domain_scores_gemma":[0.9994681,0.00003400927,0.00003258392,0.0002156424,3.452667e-7,0.0002493503],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001120723,0.0001733176,0.02489511,0.000004805246,0.00003090985,0.00001131778,0.000128959,0.00005397062,0.9572318,0.00009038836,0.002185446,0.01508189],"study_design_scores_gemma":[0.003923564,0.0006186732,0.4135902,0.000006854997,0.00005955583,0.0005984607,0.0002189576,0.00005338444,0.01964432,0.001715681,0.5584365,0.001133848],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9952664,0.00009547032,0.00000873344,0.0002488769,0.00004815841,0.0002312051,0.00008959944,0.00002455577,0.003987037],"genre_scores_gemma":[0.9954278,0.0002910799,0.0003415285,0.001972737,0.00005703032,0.00002983592,0.0002296023,0.00002005699,0.001630367],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9375875,"threshold_uncertainty_score":0.9941869,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2157683553","doi":"10.1128/aem.69.9.5178-5185.2003","title":"Real-Time PCR for Quantification of <i>Giardia</i> and <i>Cryptosporidium</i> in Environmental Water Samples and Sewage","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Parasitic Infections and Diagnostics","field":"Immunology and Microbiology","cited_by":383,"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; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; University of Alberta","keywords":"Cryptosporidium; Giardia; Sewage; Biology; Environmental science; Environmental chemistry; Microbiology; Feces; Environmental engineering; Chemistry","authors":[{"name":"Rebecca A. Guy","is_ca":true},{"name":"Pierre Payment","is_ca":true},{"name":"Ulrich J. Krull","is_ca":true},{"name":"Paul A. Horgen","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.006383649498178403,"gpt":0.1863802744050994,"spread":0.1799966249069209,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001821921,0.0001681105,0.000284098,0.0000587378,0.0001126467,0.000004827414,0.00003495451,0.0002240251,0.0001075951],"category_scores_gemma":[0.000006373704,0.0001430914,0.00002679435,0.00001572006,0.0005815362,0.00002996155,0.00004890368,0.00008758098,0.00003480036],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002263,"about_ca_system_score_gemma":0.000004673635,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000268545,"about_ca_topic_score_gemma":0.000003236306,"domain_scores_codex":[0.9990752,0.00005868372,0.0002546679,0.0003331142,0.000008256417,0.000270028],"domain_scores_gemma":[0.9996073,0.0001888605,0.00005914974,0.0001209727,0.000001209352,0.00002252163],"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":[0.00004926184,0.0001258604,0.01706521,0.00001506258,0.00003582679,5.158186e-7,0.0002173234,0.000003114444,0.9803078,0.00155518,0.00008398991,0.0005409276],"study_design_scores_gemma":[0.00213327,0.0001721474,0.02498673,0.000007180038,0.00006029519,0.0001620131,0.0005214297,0.000001731502,0.9565126,0.0005702213,0.01462333,0.0002490779],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.997904,0.0007643205,0.0001334553,0.00002258743,0.00007367501,0.0003614991,0.0003838826,0.000009002355,0.0003476022],"genre_scores_gemma":[0.9969821,0.001538178,0.0004016004,0.00006311388,0.000006720179,0.00004509739,0.0008551647,0.00001353417,0.00009451009],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02379516,"threshold_uncertainty_score":0.5835098,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2137106589","doi":"10.1128/aem.01982-07","title":"Role of Migratory Birds in Introduction and Range Expansion of <i>Ixodes scapularis</i> Ticks and of <i>Borrelia burgdorferi</i> and <i>Anaplasma phagocytophilum</i> in Canada","year":2008,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Vector-borne infectious diseases","field":"Immunology and Microbiology","cited_by":378,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Queen's University; Birds Canada; International Development Research Centre; University of Guelph; Université de Montréal; Public Health Agency of Canada","funders":"National Institute of Arthritis and Musculoskeletal and Skin Diseases; Natural Resources Canada; National Institutes of Health","keywords":"Ixodes scapularis; Anaplasma phagocytophilum; Borrelia burgdorferi; Biology; Anaplasmosis; Lyme disease; Nymph; Tick; Anaplasma; Borrelia; Veterinary medicine; Ixodidae; Virology; Zoology; Immunology; Medicine","authors":[{"name":"Nicholas H. Ogden","is_ca":true},{"name":"L. Robbin Lindsay","is_ca":true},{"name":"Klára Hanincová","is_ca":false},{"name":"Ian K. Barker","is_ca":true},{"name":"M. Bigras-Poulin","is_ca":true},{"name":"Dominique Charron","is_ca":true},{"name":"Audrey E. Heagy","is_ca":true},{"name":"Charles M. Francis","is_ca":false},{"name":"Christopher J. O’Callaghan","is_ca":true},{"name":"I. Schwartz","is_ca":false},{"name":"R. Alex Thompson","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.002486259325721165,"gpt":0.1468855682173325,"spread":0.1443993088916113,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0000831417,0.0001767293,0.0004567519,0.0001105313,0.00004239425,9.816617e-7,0.00004786035,0.0001732848,0.00001975889],"category_scores_gemma":[0.000005949732,0.0001737748,0.00001815377,0.00006374292,0.0008624392,0.000037772,0.0001046972,0.0001425962,6.010685e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005567704,"about_ca_system_score_gemma":0.00005983427,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.07615972,"about_ca_topic_score_gemma":0.05206745,"domain_scores_codex":[0.9990184,0.00007642058,0.0003642224,0.0003260456,0.00001620457,0.0001987234],"domain_scores_gemma":[0.9996325,0.00006966706,0.0001405752,0.0001265536,0.000004350262,0.00002631063],"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":[0.000162147,0.00007430163,0.303349,0.00003632795,0.00002727555,0.000001665539,0.0002575453,0.000005074441,0.695114,0.0000229721,0.00007167039,0.0008779613],"study_design_scores_gemma":[0.002558897,0.0002093852,0.3799092,0.00002229062,0.00003928943,0.0003142286,0.001221666,0.000003300672,0.6147161,0.00005160263,0.0007606825,0.0001934448],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9880307,0.01145871,0.000001111404,0.00002547631,0.0000587762,0.0002132999,0.000184176,0.000004255811,0.00002346977],"genre_scores_gemma":[0.9964843,0.003304971,0.00002238541,0.00006255491,0.000009617964,0.0000125649,0.00008496612,0.00001180282,0.000006868119],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08039798,"threshold_uncertainty_score":0.9652299,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2146477624","doi":"10.1128/aem.67.6.2469-2475.2001","title":"Selection of Specific Endophytic Bacterial Genotypes by Plants in Response to Soil Contamination","year":2001,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Plant responses to water stress","field":"Agricultural and Biological Sciences","cited_by":371,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"CARE Canada; National Research Council Canada; Biotechnology Research Institute; Fisheries and Oceans Canada","funders":"","keywords":"AlkB; Rhizosphere; Biology; Bacteria; Bioremediation; Contamination; Soil contamination; Phytoremediation; Botany; Soil microbiology; Monooxygenase; Environmental chemistry; Chemistry; Gene; Ecology; Escherichia coli; Cytochrome P450","authors":[{"name":"Steven D. Siciliano","is_ca":true},{"name":"Nathalie Fortin","is_ca":true},{"name":"Anca Mihoc","is_ca":true},{"name":"Gesine Wisse","is_ca":true},{"name":"Suzanne Labelle","is_ca":true},{"name":"Danielle Beaumier","is_ca":true},{"name":"Danielle Ouellette","is_ca":true},{"name":"Réal Roy","is_ca":true},{"name":"Lyle G. Whyte","is_ca":true},{"name":"M.K. Banks","is_ca":false},{"name":"A. P. Schwab","is_ca":false},{"name":"Ken Lee","is_ca":true},{"name":"Charles W. Greer","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.0047188205477427,"gpt":0.1551412683097839,"spread":0.1504224477620412,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009451729,0.00009089169,0.0001317187,0.00001948311,0.00003603021,0.000006618031,0.00006578584,0.00008046886,0.0002208628],"category_scores_gemma":[0.000001997984,0.00004595743,0.00001275706,0.00004870217,0.00005384746,0.00002165733,0.00004173568,0.00004504903,0.00002513942],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003598227,"about_ca_system_score_gemma":0.000001241179,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006278729,"about_ca_topic_score_gemma":0.0002315996,"domain_scores_codex":[0.9993923,0.00006925133,0.0001398597,0.0002060386,0.00002530249,0.0001672882],"domain_scores_gemma":[0.9998032,0.0001009683,0.00003913583,0.00002165921,9.63564e-7,0.0000340775],"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":[0.00172306,0.00005479435,0.006248818,8.399482e-7,0.000003340438,0.000002610682,0.00005692477,0.0000017909,0.9750797,0.00000251896,0.0001319045,0.01669371],"study_design_scores_gemma":[0.0003587817,0.0002487123,0.4520048,0.000004307231,0.000001884173,0.00006692045,0.0001020737,0.000001617405,0.5110196,0.00001002458,0.03607114,0.000110129],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9993594,0.00004343256,0.000001533157,0.00008237678,0.00003759774,0.0001525155,0.000251884,0.000007627224,0.00006359696],"genre_scores_gemma":[0.999235,0.0001558937,0.00001581181,0.00005417257,0.00002887976,0.00001119698,0.0003796375,7.886441e-7,0.0001186464],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.46406,"threshold_uncertainty_score":0.2418293,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2143303915","doi":"10.1128/aem.69.9.5543-5554.2003","title":"Scanning Transmission X-Ray, Laser Scanning, and Transmission Electron Microscopy Mapping of the Exopolymeric Matrix of Microbial Biofilms","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":360,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University; Brockhouse Institute for Materials Research","funders":"","keywords":"Biofilm; Microscopy; Macromolecule; Correlative; Transmission electron microscopy; Chemical imaging; Confocal; Nucleic acid; Materials science; Chemistry; Biophysics; Nanotechnology; Biology; Bacteria; Optics; Biochemistry; Remote sensing; Physics","authors":[{"name":"John R. Lawrence","is_ca":false},{"name":"G. D. W. Swerhone","is_ca":false},{"name":"Gary G. Leppard","is_ca":false},{"name":"Tohru Araki","is_ca":true},{"name":"X. Zhang","is_ca":true},{"name":"Marcia West","is_ca":true},{"name":"Adam P. Hitchcock","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003477454002709028,"gpt":0.1955811655200738,"spread":0.1921037115173648,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001062258,0.0002062562,0.0002509826,0.0000373926,0.0001263039,0.000006866644,0.00008961874,0.0002290016,0.00002317052],"category_scores_gemma":[0.000001810425,0.0001595378,0.00007390528,0.00005635228,0.0004460459,0.000003676221,0.00006375815,0.0001008491,5.853188e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009260374,"about_ca_system_score_gemma":0.00002116353,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001877924,"about_ca_topic_score_gemma":8.040867e-7,"domain_scores_codex":[0.9989888,0.00006644805,0.0002851788,0.0003534873,0.0000316548,0.000274419],"domain_scores_gemma":[0.9996216,0.000008963278,0.0001466268,0.0001629841,0.000003460244,0.00005632805],"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":[0.00009686715,0.0000472228,0.001021293,0.00003734818,0.00003210194,2.754165e-7,0.0001292861,0.0000060623,0.9956899,0.00001845192,0.00004889173,0.00287229],"study_design_scores_gemma":[0.0007398037,0.000151609,0.001475446,0.00003541361,0.00002826629,0.00006135165,0.0001610547,0.000002371684,0.9796306,0.00000637491,0.01753314,0.0001745202],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9968397,0.002533338,0.000169056,0.00003866667,0.00006445663,0.0001997655,0.00003805462,0.000003780041,0.0001131765],"genre_scores_gemma":[0.9968513,0.0007015856,0.002112152,0.00009378291,0.000024431,0.000002698009,0.00008663387,0.00002141291,0.0001059537],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01748425,"threshold_uncertainty_score":0.6505761,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2591278429","doi":"10.1128/aem.00061-17","title":"Metatranscriptomic Profiling Reveals Linkages between the Active Rumen Microbiome and Feed Efficiency in Beef Cattle","year":2017,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Ruminant Nutrition and Digestive Physiology","field":"Agricultural and Biological Sciences","cited_by":359,"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":"Alberta Innovates - Technology Futures; Natural Sciences and Engineering Research Council of Canada; Alberta Livestock and Meat Agency; Government of Canada","keywords":"Biology; Lachnospiraceae; Rumen; Firmicutes; Microbiome; Ruminococcus; Bacteroidetes; Metagenomics; Proteobacteria; Euryarchaeota; Bacterial phyla; Microbiology; Beef cattle; 16S ribosomal RNA; Food science; Bacteria; Biochemistry; Animal science; Fermentation; Genetics; Gene","authors":[{"name":"Fuyong Li","is_ca":true},{"name":"Le Luo Guan","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01286870580730646,"gpt":0.2080274396097305,"spread":0.195158733802424,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001383705,0.0001573482,0.0002504546,0.000013191,0.0004901156,0.00003629048,0.0002194431,0.0001256376,0.00002900996],"category_scores_gemma":[0.000005331401,0.00006411353,0.00003407411,0.00002824733,0.0006184161,0.00005354336,0.000161486,0.0001474508,0.00001590612],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001893458,"about_ca_system_score_gemma":0.000001879399,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007298205,"about_ca_topic_score_gemma":0.00001798056,"domain_scores_codex":[0.9991047,0.00005743864,0.0001692769,0.0003661099,0.00002139622,0.0002810551],"domain_scores_gemma":[0.9996374,0.0001294994,0.0001034532,0.00008025586,0.000001969423,0.00004739228],"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":[0.00001451477,0.00004369238,0.03422416,0.00000406362,0.00001096525,6.836849e-7,0.00007410005,1.521817e-7,0.9597479,0.0001241571,0.00001666041,0.005738965],"study_design_scores_gemma":[0.0003700416,0.000104551,0.896198,0.000006028019,0.0000144431,0.00001317206,0.0004174099,7.279291e-7,0.1006231,0.0007861624,0.001318512,0.0001478277],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9976127,0.0003599394,0.000001141383,0.001109875,0.00003772522,0.0003301181,0.0002552181,0.00001005252,0.0002832856],"genre_scores_gemma":[0.9990836,0.0003256933,0.00003319717,0.0002072837,0.00006212984,0.00002769371,0.0002068821,0.000001534015,0.00005196109],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8619738,"threshold_uncertainty_score":0.3769622,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2148686392","doi":"10.1128/aem.02815-08","title":"Assessment of the Microbial Ecology of Ruminal Methanogens in Cattle with Different Feed Efficiencies","year":2009,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Ruminant Nutrition and Digestive Physiology","field":"Agricultural and Biological Sciences","cited_by":341,"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","keywords":"Rumen; Biology; 16S ribosomal RNA; Strain (injury); Population; Microbial ecology; Genotype; Animal science; Methanogenesis; Ecology; Bacteria; Veterinary medicine; Microbiology; Food science; Methane; Gene; Fermentation; Genetics","authors":[{"name":"Mi Zhou","is_ca":false},{"name":"Emma Hernandez‐Sanabria","is_ca":false},{"name":"Le Luo Guan","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005761621224787914,"gpt":0.1826183180866755,"spread":0.1768566968618876,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00005393992,0.0001115559,0.0002494325,0.00001361953,0.00005188206,0.000001869994,0.0001229136,0.00007954296,0.000067893],"category_scores_gemma":[0.000001434595,0.00003857815,0.000038759,0.00007088171,0.0004745088,0.00000998292,0.00006369321,0.00007804171,7.496773e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002141167,"about_ca_system_score_gemma":0.000004049936,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001769932,"about_ca_topic_score_gemma":0.00008842046,"domain_scores_codex":[0.9993568,0.00005693325,0.0001804888,0.0001995628,0.00002880941,0.0001773701],"domain_scores_gemma":[0.9997439,0.00008192326,0.0001036333,0.0000451354,0.000002895131,0.00002250244],"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":[0.00004128549,0.0002984108,0.05369519,0.000002963933,0.000005273413,2.979029e-7,0.00003191438,0.0000085776,0.9441336,0.00046638,0.000008990748,0.001307141],"study_design_scores_gemma":[0.0002962627,0.0004450465,0.7771472,0.000004500197,0.000007145702,0.00001411219,0.0002314799,0.000001604414,0.2215961,0.0001106518,0.00008340617,0.00006243431],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9991061,0.00004268985,0.000001480243,0.0003052571,0.00002319181,0.0001826972,0.00007850553,0.000003195833,0.0002568952],"genre_scores_gemma":[0.999658,0.00004119354,0.00004211966,0.0001660158,0.00001119846,0.000006206356,0.000061328,5.522365e-7,0.00001337542],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.723452,"threshold_uncertainty_score":0.1748347,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2084599172","doi":"10.1128/aem.71.11.6753-6761.2005","title":"Antimicrobial Resistance and Virulence Genes of <i>Escherichia coli</i> Isolates from Swine in Ontario","year":2005,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":337,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"Public Health Agency of Canada; University of Guelph","funders":"","keywords":"Virulence; Microbiology; Escherichia coli; Biology; Tetracycline; Antibiotic resistance; Enterotoxigenic Escherichia coli; Antimicrobial; Streptomycin; Pathogenic Escherichia coli; Plasmid; Gene; Antibiotics; Enterotoxin; Genetics","authors":[{"name":"Patrick Boerlin","is_ca":true},{"name":"Rebeccah Travis","is_ca":true},{"name":"Carlton Gyles","is_ca":true},{"name":"Richard J. Reid‐Smith","is_ca":true},{"name":"Nicol Janecko","is_ca":true},{"name":"Vivian M. Nicholson","is_ca":true},{"name":"Scott A. McEwen","is_ca":true},{"name":"Robert Friendship","is_ca":true},{"name":"Marie Archambault","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003356540200404485,"gpt":0.1680335911111431,"spread":0.1646770509107386,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00004974027,0.0001591433,0.0002126581,0.00001874034,0.00003365347,0.0000061153,0.00009666028,0.0001666892,0.00003947945],"category_scores_gemma":[0.000001479908,0.0001593527,0.00002193993,0.00001821253,0.0003903812,0.000004414685,0.0001336959,0.00008417893,0.000004199649],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002573807,"about_ca_system_score_gemma":0.00001644872,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006131312,"about_ca_topic_score_gemma":0.01147541,"domain_scores_codex":[0.9991633,0.00002047814,0.0002306222,0.0003803152,0.00001635356,0.0001888878],"domain_scores_gemma":[0.9997067,0.00001190122,0.00008278951,0.0001624854,0.000001866904,0.00003422856],"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":[0.0001746355,0.00005422388,0.09643845,0.000007665618,0.00001891142,9.770131e-7,0.00007634761,0.000004215042,0.9028091,0.00001709555,0.00008586621,0.0003124837],"study_design_scores_gemma":[0.0008584972,0.00004893407,0.1756495,0.00001735194,0.0000131504,0.000008991575,0.00006653278,0.0000014956,0.7964714,0.00003133228,0.0266161,0.0002167614],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9979668,0.00148906,0.0000408667,0.0000573874,0.00003250752,0.0001269532,0.00009893953,0.000003010255,0.0001845083],"genre_scores_gemma":[0.9949113,0.001308698,0.002977219,0.0002830313,0.00004295108,0.000003495973,0.0002535459,0.00001316636,0.0002066683],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1063377,"threshold_uncertainty_score":0.6498216,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2009594480","doi":"10.1128/aem.01665-12","title":"Bioremediation and Tolerance of Humans to Heavy Metals through Microbial Processes: a Potential Role for Probiotics?","year":2012,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Heavy metals in environment","field":"Environmental Science","cited_by":324,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"Lawson Health Research Institute; Western University","funders":"","keywords":"Bioremediation; Heavy metals; Biology; Biotechnology; Microbiology; Bacteria; Biochemical engineering; Environmental chemistry; Chemistry; Genetics; Engineering","authors":[{"name":"Marc Monachese","is_ca":true},{"name":"Jeremy P. Burton","is_ca":true},{"name":"Gregor Reid","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00712311785864432,"gpt":0.2079283485845212,"spread":0.2008052307258769,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002522827,0.0002582174,0.0003430413,0.00003044177,0.0001395646,0.00001011433,0.0001434813,0.0001588796,0.0001822511],"category_scores_gemma":[0.00001087958,0.0002404479,0.00004385636,0.00007062361,0.0005903956,0.0001541431,0.0003115452,0.0000853811,0.00007754102],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009191198,"about_ca_system_score_gemma":0.000005406955,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002672815,"about_ca_topic_score_gemma":0.000009581846,"domain_scores_codex":[0.9985349,0.00003642199,0.0003634922,0.0004813077,0.00007571065,0.0005081751],"domain_scores_gemma":[0.9994773,0.00004853544,0.0001333405,0.0002014883,0.000001411449,0.0001379026],"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":[0.00008913795,0.0002430155,0.003703379,0.0000476184,0.00002474634,1.596979e-7,0.00146674,0.0002718852,0.9923872,0.00006233702,0.0001782188,0.001525505],"study_design_scores_gemma":[0.001459819,0.0004796257,0.02672318,0.00001707035,0.0001326427,0.00005385268,0.0009304714,0.00003645023,0.9303796,0.0004796105,0.03867457,0.0006331295],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9944204,0.0005142083,0.003258085,0.0001029848,0.0001155344,0.001144289,0.0001862211,0.000015493,0.0002427784],"genre_scores_gemma":[0.982483,0.0001836635,0.01640293,0.0005015229,0.00008995119,0.0001279124,0.0001149306,0.00002940783,0.00006667081],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06200768,"threshold_uncertainty_score":0.9805183,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2142796911","doi":"10.1128/aem.02332-06","title":"Oil Field Souring Control by Nitrate-Reducing <i>Sulfurospirillum</i> spp. That Outcompete Sulfate-Reducing Bacteria for Organic Electron Donors","year":2007,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Mine drainage and remediation techniques","field":"Environmental Science","cited_by":316,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Calgary","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Alberta; ConocoPhillips","keywords":"Nitrate; Desulfovibrio; Sulfate; Nitrite; Sulfate-reducing bacteria; Chemistry; Bioreactor; Sulfide; Bacteria; Environmental chemistry; Microbiology; Nitrification; Sulfur; Food science; Biology; Nitrogen; Organic chemistry","authors":[{"name":"Casey R. J. Hubert","is_ca":true},{"name":"Gerrit Voordouw","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003465917645174579,"gpt":0.1848558968166648,"spread":0.1813899791714902,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.000360965,0.0002984323,0.0003071859,0.0000406294,0.000250505,0.00002710081,0.0001889867,0.0002299464,0.0008098994],"category_scores_gemma":[0.000007650076,0.0002743798,0.00007404896,0.00005413578,0.0002219287,0.00009373305,0.0001329566,0.0001950282,0.00007954336],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001546285,"about_ca_system_score_gemma":0.000004752418,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001248649,"about_ca_topic_score_gemma":0.00003799822,"domain_scores_codex":[0.9983321,0.00002575973,0.0003454488,0.0005833414,0.0000628253,0.0006505089],"domain_scores_gemma":[0.9993695,0.0001411412,0.0001594497,0.0002061098,0.000001269381,0.000122531],"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":[0.00007419052,0.0000547072,0.001809973,0.00001269053,0.00002202933,0.00000168958,0.0001644242,0.000009747301,0.9914638,0.00001489844,0.001622167,0.004749681],"study_design_scores_gemma":[0.0009752819,0.0001607479,0.0006943062,0.000006300769,0.00003152263,0.00003163163,0.0001745229,0.00001511744,0.9813926,0.00006256682,0.01610709,0.0003483771],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9936234,0.0001438051,0.004077654,0.0001733794,0.00012128,0.0002579807,0.00006413629,0.00007405268,0.001464283],"genre_scores_gemma":[0.9964404,0.0001842886,0.0008789754,0.001280113,0.00008932246,0.00004160791,0.0002396328,0.00003877147,0.0008068844],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01448492,"threshold_uncertainty_score":0.9999709,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2170944238","doi":"10.1128/aem.07759-11","title":"Effect of Phenotypic Residual Feed Intake and Dietary Forage Content on the Rumen Microbial Community of Beef Cattle","year":2012,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Ruminant Nutrition and Digestive Physiology","field":"Agricultural and Biological Sciences","cited_by":315,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Alberta","funders":"","keywords":"Rumen; Biology; Fibrobacter succinogenes; Prevotella; Temperature gradient gel electrophoresis; Ruminococcus; Forage; Population; Animal science; Beef cattle; Microbial population biology; Animal feed; Food science; Fermentation; Agronomy; Microbiology; Bacteria; Feces","authors":[{"name":"Ciara A. Carberry","is_ca":false},{"name":"D.A. Kenny","is_ca":false},{"name":"Sukkyan Han","is_ca":true},{"name":"Matthew S. McCabe","is_ca":false},{"name":"Sinéad M. Waters","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01953850362116747,"gpt":0.1952549108320832,"spread":0.1757164072109157,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002419188,0.0001183137,0.0002270643,0.00000720026,0.0001472951,0.000002493789,0.00009402398,0.00008355191,0.00007570018],"category_scores_gemma":[0.000006326509,0.00004332862,0.00003358294,0.00002479189,0.0006053942,0.00001920106,0.0001383284,0.0001305004,0.000006252916],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008671653,"about_ca_system_score_gemma":6.687762e-7,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001195535,"about_ca_topic_score_gemma":0.00001540179,"domain_scores_codex":[0.9993076,0.0002355464,0.0001477106,0.0001110527,0.00002075739,0.0001773267],"domain_scores_gemma":[0.9992971,0.0005253954,0.00008329107,0.00005346717,0.000001834713,0.00003890444],"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":[0.0002727753,0.0001741392,0.007980954,0.00001243693,0.0000169777,5.872204e-8,0.0001372565,1.255375e-7,0.9848333,0.0002537976,0.0001294985,0.006188692],"study_design_scores_gemma":[0.0004063224,0.001267525,0.5150794,0.00000751788,0.00001899777,0.000009874633,0.0007148071,1.574646e-7,0.4815955,0.00007911181,0.0007336126,0.00008716514],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987744,0.0002351795,1.327114e-7,0.0002110274,0.00003216885,0.0002319727,0.0002600506,0.000004738819,0.0002502997],"genre_scores_gemma":[0.9993401,0.00008955341,0.000006078839,0.0002262094,0.00003493505,0.00001182133,0.0002739071,0.000001028247,0.00001633153],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5070984,"threshold_uncertainty_score":0.22306,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2026563404","doi":"10.1128/aem.69.1.483-489.2003","title":"Changes in Microbial Community Composition and Function during a Polyaromatic Hydrocarbon Phytoremediation Field Trial","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":315,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Saskatchewan; Biotechnology Research Institute","funders":"","keywords":"Rhizosphere; Phytoremediation; Mineralization (soil science); Bulk soil; Microbial population biology; Environmental chemistry; Soil microbiology; Biology; Microbial biodegradation; Soil contamination; Sphingomonas; Phenanthrene; Chemistry; Botany; Agronomy; Pseudomonas; Soil water; Microorganism; Bacteria; Ecology","authors":[{"name":"Steven D. Siciliano","is_ca":true},{"name":"James J. Germida","is_ca":true},{"name":"Kathy Banks","is_ca":false},{"name":"Charles W. Greer","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005723349028446794,"gpt":0.1731320588906234,"spread":0.1674087098621766,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001859511,0.0001537856,0.0001644404,0.00004512191,0.000157801,0.00001325144,0.00005303554,0.0001521456,0.0003194777],"category_scores_gemma":[0.000005321991,0.000149895,0.00001655359,0.00006059575,0.0001694524,0.00005048642,0.00008606551,0.0001891362,0.00004212863],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009711606,"about_ca_system_score_gemma":0.000002200263,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00008092824,"about_ca_topic_score_gemma":0.000343454,"domain_scores_codex":[0.9991772,0.0001405746,0.0001891029,0.0002381536,0.0000396728,0.0002152501],"domain_scores_gemma":[0.9997132,0.00004664404,0.00008056904,0.0001055862,3.914531e-7,0.00005356427],"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":[0.0007623715,0.0001265228,0.01124184,0.000008532427,0.000005511824,6.223873e-7,0.0002807336,0.000002566274,0.9868827,0.00001153988,0.00003369583,0.0006433997],"study_design_scores_gemma":[0.02124531,0.0006881841,0.1391888,0.00001734686,0.00003539302,0.000069384,0.0006431527,0.00002070949,0.8361599,0.000222405,0.001201074,0.0005083514],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998859,0.00002817731,0.00001129215,0.00008341674,0.0001221514,0.0003927121,0.00001494522,0.0000155475,0.000472757],"genre_scores_gemma":[0.9991739,0.0000980944,0.00007958886,0.0004707542,0.00002535229,0.000013856,0.000108831,0.000008627623,0.00002100652],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1507227,"threshold_uncertainty_score":0.6112542,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2132954220","doi":"10.1128/aem.00246-08","title":"Microencapsulation of Bacteriophage Felix O1 into Chitosan-Alginate Microspheres for Oral Delivery","year":2008,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":306,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Guelph; Agriculture and Agri-Food Canada","funders":"Agriculture and Agri-Food Canada; China Scholarship Council","keywords":"Bacteriophage; Incubation; Chitosan; Incubation period; Microsphere; Trehalose; Chemistry; Microbiology; In vitro; Pepsin; Bacteria; Chromatography; Biology; Biochemistry; Chemical engineering; Escherichia coli","authors":[{"name":"Yongsheng Ma","is_ca":true},{"name":"Jennifer C. Pacan","is_ca":true},{"name":"Qi Wang","is_ca":true},{"name":"Yongping Xu","is_ca":false},{"name":"Xiaoqing Huang","is_ca":true},{"name":"Anton Korenevsky","is_ca":true},{"name":"Parviz M. Sabour","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005669271400525169,"gpt":0.187417213754233,"spread":0.1817479423537078,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00004716064,0.0002231782,0.0002743217,0.00002827385,0.000251542,0.000009133216,0.0001440634,0.0001417461,0.000854451],"category_scores_gemma":[0.000002003194,0.000215089,0.00008797647,0.00004011302,0.0007168384,0.0001140412,0.0002140174,0.0001025185,0.00009230466],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006315039,"about_ca_system_score_gemma":0.000004540241,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002457921,"about_ca_topic_score_gemma":0.00003194098,"domain_scores_codex":[0.9989246,0.00002255876,0.000309213,0.0004149591,0.00003100831,0.0002976604],"domain_scores_gemma":[0.9995767,0.0000355655,0.0001434569,0.0001742214,0.000001353321,0.00006873533],"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":[0.0000858723,0.0001163136,0.002321014,0.00001289169,0.00002553456,0.000001968899,0.0004721605,0.00002646767,0.9917102,0.000009097025,0.0004610834,0.004757337],"study_design_scores_gemma":[0.001004739,0.0001722858,0.1033593,0.000007341369,0.00003348392,0.0001877175,0.0001796742,0.00002780065,0.8775935,0.00008554041,0.01705284,0.0002957861],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983345,0.000153181,0.0003895873,0.00005036451,0.0001278306,0.0003749948,0.0001702693,0.00001951008,0.0003797366],"genre_scores_gemma":[0.9934674,0.0002271219,0.005404342,0.0002510506,0.00003141877,0.00003383236,0.0003450997,0.00002445681,0.0002152787],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1141168,"threshold_uncertainty_score":0.935564,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2117664027","doi":"10.1128/aem.01821-08","title":"Antimicrobial Resistance in <i>Escherichia coli</i> Isolates from Swine and Wild Small Mammals in the Proximity of Swine Farms and in Natural Environments in Ontario, Canada","year":2008,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Pharmaceutical and Antibiotic Environmental Impacts","field":"Environmental Science","cited_by":306,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"Public Health Agency of Canada; University of Guelph","funders":"","keywords":"Biology; Antimicrobial; Escherichia coli; Antibiotic resistance; Tetracycline; Livestock; Salmonella; Microbiology; Feces; Veterinary medicine; Bacteria; Antibiotics; Ecology; Gene","authors":[{"name":"Gosia K. Kozak","is_ca":true},{"name":"Patrick Boerlin","is_ca":true},{"name":"Nicol Janecko","is_ca":true},{"name":"Richard J. Reid‐Smith","is_ca":true},{"name":"Claire M. Jardine","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.008516133624456653,"gpt":0.1776291473316527,"spread":0.1691130137071961,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001778979,0.0002854337,0.0003985795,0.00004222523,0.00005859138,0.000006848081,0.0001776619,0.0001311374,0.00009596361],"category_scores_gemma":[0.00000394695,0.0002340472,0.00001784547,0.00009850235,0.0008930273,0.00009942553,0.0003118295,0.0004573579,0.000003609822],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003789724,"about_ca_system_score_gemma":0.00001538134,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.3580358,"about_ca_topic_score_gemma":0.8602778,"domain_scores_codex":[0.9983754,0.00009258247,0.0004396192,0.0005527784,0.0000767056,0.000462871],"domain_scores_gemma":[0.9995843,0.0000910543,0.00009178364,0.0001528313,1.573961e-7,0.00007993427],"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":[0.0001107035,0.0001807468,0.463201,0.000006365106,0.000004018545,0.00003893397,0.0005588967,0.00002936721,0.535726,0.000002291094,0.00001888856,0.0001228096],"study_design_scores_gemma":[0.001970065,0.00003268897,0.9698198,0.00003088016,0.000007268907,0.00003128433,0.0002085476,0.0000297878,0.0265418,0.00007413075,0.000995783,0.0002579168],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9984059,0.0005038278,0.000001374364,0.0002973185,0.00002860122,0.0004719105,0.00006124565,0.000002206639,0.0002276261],"genre_scores_gemma":[0.9975803,0.0007367915,0.0002791445,0.001231369,0.000006550859,0.00001046462,0.00007034148,0.00001281769,0.00007217192],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5091842,"threshold_uncertainty_score":0.9544167,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2162046720","doi":"10.1128/aem.68.5.2148-2154.2002","title":"<i>Tri13</i> and <i>Tri7</i> Determine Deoxynivalenol- and Nivalenol-Producing Chemotypes of <i>Gibberella zeae</i>","year":2002,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Mycotoxins in Agriculture and Food","field":"Agricultural and Biological Sciences","cited_by":299,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"","funders":"University of Saskatchewan","keywords":"Chemotype; Trichothecene; Gibberella zeae; Gibberella; Biology; Vomitoxin; Gene; Mycotoxin; Microbiology; Fusarium; Genetics; Botany; Zearalenone","authors":[{"name":"Theresa Lee","is_ca":false},{"name":"You‐Kyoung Han","is_ca":false},{"name":"Kook‐Hyung Kim","is_ca":false},{"name":"Sung‐Hwan Yun","is_ca":false},{"name":"Yin‐Won Lee","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007194147209524751,"gpt":0.1373614112929061,"spread":0.1301672640833814,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008424515,0.0002164653,0.0002992837,0.0000124935,0.0001393695,0.00001492103,0.0001037079,0.0001729009,0.0002058397],"category_scores_gemma":[0.000003791977,0.00009681171,0.00003449443,0.00007181588,0.0005164938,0.00004083541,0.0001928447,0.0001228876,0.00001174053],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008305579,"about_ca_system_score_gemma":5.23365e-7,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001315643,"about_ca_topic_score_gemma":0.00001048735,"domain_scores_codex":[0.9989589,0.00002466782,0.0002302742,0.0004748587,0.00004331063,0.0002679575],"domain_scores_gemma":[0.9996402,0.00010177,0.00009836311,0.00006987681,0.000002958961,0.00008684582],"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":[0.00001390233,0.00006904164,0.003854376,0.00001662182,0.00001656704,0.000001298259,0.0001460822,1.430311e-7,0.9530433,0.00008501743,0.0003893087,0.04236427],"study_design_scores_gemma":[0.001430123,0.000969915,0.04181223,0.00004627129,0.0001185132,0.0007669426,0.0008854978,0.0000148982,0.8253138,0.0004928419,0.127188,0.0009609135],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9936849,0.003858694,0.000001268567,0.0002292302,0.00003478766,0.0002070847,0.0001140032,0.00002086171,0.001849125],"genre_scores_gemma":[0.9940543,0.004968971,0.0001585625,0.0004102636,0.0001005661,0.000008142728,0.00006761403,0.000002038059,0.0002295384],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1277296,"threshold_uncertainty_score":0.3947867,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2130468058","doi":"10.1128/aem.71.9.5182-5191.2005","title":"Phylogenetic Characterization of Virulence and Resistance Phenotypes of <i>Pseudomonas syringae</i>","year":2005,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":297,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs","keywords":"Biology; Virulence; Multilocus sequence typing; Microbiology; Pseudomonas syringae; Antibiotic resistance; Phylogenetics; Horizontal gene transfer; Genetics; Pathogen; Gene; Antibiotics; Genotype","authors":[{"name":"Michael S. Hwang","is_ca":true},{"name":"Robyn L. Morgan","is_ca":true},{"name":"Sara F. Sarkar","is_ca":true},{"name":"Pauline W. Wang","is_ca":true},{"name":"David S. Guttman","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004361806912671298,"gpt":0.1456845647641066,"spread":0.1413227578514353,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00004370636,0.00008207663,0.0001551259,0.000004815554,0.00004349199,0.000002097546,0.00005452503,0.00005161938,0.00002778173],"category_scores_gemma":[0.000001185728,0.00003968031,0.00001327195,0.0000242789,0.0002305655,0.00001881111,0.00007766452,0.00002727312,0.000002650433],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000005065251,"about_ca_system_score_gemma":7.061967e-7,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003118419,"about_ca_topic_score_gemma":0.00002219207,"domain_scores_codex":[0.9995488,0.00001555418,0.0001462194,0.0001679362,0.00001927442,0.0001022029],"domain_scores_gemma":[0.9998244,0.00003728867,0.00009107737,0.0000268101,0.000001630878,0.00001879329],"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":[0.00002708516,0.00002981325,0.004692072,0.00000814409,0.00000882456,1.2395e-7,0.00005589316,1.140857e-7,0.9853245,0.00009741024,0.000002865066,0.009753134],"study_design_scores_gemma":[0.0001326281,0.00005344172,0.4158802,0.000009121873,0.00001234567,0.00001004164,0.00006652845,7.641255e-7,0.5797606,0.0000449192,0.003934653,0.00009475949],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988146,0.0005054586,0.000001611312,0.00007420557,0.00001171459,0.00008653799,0.0003710543,0.000004790202,0.0001300716],"genre_scores_gemma":[0.9983672,0.001164111,0.0002084967,0.0000656062,0.0000264114,0.000005124034,0.0001372519,6.388068e-7,0.00002518055],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4111881,"threshold_uncertainty_score":0.1618116,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1870558638","doi":"10.1128/aem.01248-15","title":"Coupling the CRISPR/Cas9 System with Lambda Red Recombineering Enables Simplified Chromosomal Gene Replacement in Escherichia coli","year":2015,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":282,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"McMaster University; University of Waterloo","funders":"","keywords":"Recombineering; CRISPR; Cas9; Biology; Genome editing; Genetics; Plasmid; Homologous recombination; Escherichia coli; Gene; DNA","authors":[{"name":"Michael E. Pyne","is_ca":true},{"name":"Murray Moo‐Young","is_ca":true},{"name":"Duane A. Chung","is_ca":true},{"name":"C. Perry Chou","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.005467233457581778,"gpt":0.1992563040222078,"spread":0.193789070564626,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001677198,0.00019628,0.0001820334,0.0000233609,0.00006419155,0.00001412415,0.0001146507,0.0001280355,0.000004606444],"category_scores_gemma":[0.00000289455,0.0001502388,0.00002180664,0.00004156464,0.0001005394,0.000002220613,0.0001502813,0.0001065832,0.000004402086],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005465393,"about_ca_system_score_gemma":0.000015868,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000248213,"about_ca_topic_score_gemma":0.00002312907,"domain_scores_codex":[0.9990861,0.00001655272,0.0001990282,0.000368109,0.00003917117,0.0002910576],"domain_scores_gemma":[0.9996156,0.00001041354,0.00004981907,0.0002474405,0.000003457143,0.00007330839],"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":[0.0001567226,0.00002952898,0.001673212,0.00001831086,0.00003798195,0.000004451907,0.00008975189,0.00836379,0.9893875,0.00003028929,0.0001298053,0.00007872443],"study_design_scores_gemma":[0.00288434,0.0005693475,0.003434566,0.00002571621,0.00003521354,0.0002216019,0.003001574,0.001512512,0.9751611,0.000005701394,0.01267297,0.0004753977],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9964573,0.0008194937,0.00201969,0.00005049053,0.00008721039,0.0003118051,0.00001743839,0.00001533674,0.0002212476],"genre_scores_gemma":[0.9987763,0.0001247518,0.0005814866,0.00007804886,0.00007575607,0.00006974871,0.0002075961,0.00002736293,0.00005894118],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01422637,"threshold_uncertainty_score":0.6126561,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2163125517","doi":"10.1128/aem.71.11.6986-6997.2005","title":"Comparison of Microbial Community Compositions of Two Subglacial Environments Reveals a Possible Role for Microbes in Chemical Weathering Processes","year":2005,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Polar Research and Ecology","field":"Environmental Science","cited_by":279,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"University of Alberta","funders":"Jet Propulsion Laboratory","keywords":"Glacier; Betaproteobacteria; Microbial population biology; Population; Geology; Biology; 16S ribosomal RNA; Paleontology; Bacteria","authors":[{"name":"Mark Skidmore","is_ca":false},{"name":"Suzanne P. Anderson","is_ca":false},{"name":"Martin Sharp","is_ca":true},{"name":"Julia M. Foght","is_ca":true},{"name":"Brian Lanoil","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01242402660485962,"gpt":0.2678328976943352,"spread":0.2554088710894755,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000224404,0.0001716479,0.0004040413,0.00005259256,0.0001263109,0.000004876843,0.0002541827,0.0001292061,0.0002182507],"category_scores_gemma":[0.000008894662,0.0001757038,0.00004796674,0.00007024583,0.00088494,0.00006656302,0.0003758679,0.0002221602,0.00003013406],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001416013,"about_ca_system_score_gemma":0.000008054119,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001490463,"about_ca_topic_score_gemma":0.0004144325,"domain_scores_codex":[0.9987943,0.00007827277,0.0004221263,0.0002580443,0.0000484328,0.0003988273],"domain_scores_gemma":[0.9994808,0.0001335736,0.0001425022,0.0001697235,0.000001073794,0.00007232619],"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":[0.0001220123,0.0008230233,0.1172357,0.00003267437,0.00001613349,1.702158e-7,0.0009488033,0.000172397,0.8790668,0.00001955084,0.00005509134,0.001507676],"study_design_scores_gemma":[0.001825658,0.0002150277,0.02742766,0.00001491055,0.00001563461,0.00001909958,0.0006393626,0.00005642428,0.9674516,0.0003071681,0.00182953,0.0001979236],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9986549,0.0001705857,0.00009885315,0.00004350628,0.000012149,0.0004447696,0.0002105046,0.000005727544,0.0003589808],"genre_scores_gemma":[0.9967786,0.0000485446,0.002766609,0.00006658546,0.00001889267,0.00005118562,0.000221115,0.0000152015,0.00003325563],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08980802,"threshold_uncertainty_score":0.7164993,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2038871965","doi":"10.1128/aem.72.5.3085-3095.2006","title":"Diversity and Distribution of Marine Microbial Eukaryotes in the Arctic Ocean and Adjacent Seas","year":2006,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":278,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"Université Laval","funders":"","keywords":"Arctic; Oceanography; Canada Basin; Ecology; Biology; Halocline; Biodiversity; Water column; Arctic ecology; Mesopelagic zone; Pelagic zone; Geology","authors":[{"name":"Connie Lovejoy","is_ca":true},{"name":"Ramón Massana","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003908924242617744,"gpt":0.153010859837631,"spread":0.1491019355950133,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001585189,0.0001219142,0.0001633364,0.000014047,0.0004559324,0.000002969887,0.0001172677,0.0001061582,0.0002071124],"category_scores_gemma":[0.000002001681,0.0000982795,0.00001633809,0.00003801046,0.001100875,0.00003004783,0.001867364,0.0001583598,0.000005033677],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004029226,"about_ca_system_score_gemma":0.0000012087,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001333151,"about_ca_topic_score_gemma":0.0006911033,"domain_scores_codex":[0.9993283,0.000107889,0.0001395544,0.0002165209,0.00001985883,0.0001879124],"domain_scores_gemma":[0.9997176,0.00008868097,0.00005619837,0.0001142529,4.998751e-7,0.00002277325],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00005836174,0.0001382719,0.6539725,0.00001090004,0.0000068211,0.000001717046,0.0005111008,0.00001888098,0.3442543,0.000321171,0.0002978667,0.0004081167],"study_design_scores_gemma":[0.0005602978,0.00008544881,0.9941753,0.000002304147,0.00001761357,0.00006853887,0.0002088653,0.000006757846,0.00174514,0.00161319,0.001405534,0.0001110726],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9992933,0.00008184361,0.00000553924,0.0001413894,0.00001760051,0.0001778363,0.00006101358,0.000003867227,0.0002176561],"genre_scores_gemma":[0.9991094,0.0001727306,0.00003151893,0.0002535035,0.00001018644,0.000001982796,0.0003999049,0.000003597266,0.00001717241],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3425092,"threshold_uncertainty_score":0.4056218,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2063754943","doi":"10.1128/aem.69.8.4396-4402.2003","title":"<i>Rhizobium leguminosarum</i> Biovar viciae 1-Aminocyclopropane-1-Carboxylate Deaminase Promotes Nodulation of Pea Plants","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Legume Nitrogen Fixing Symbiosis","field":"Agricultural and Biological Sciences","cited_by":275,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Wilfrid Laurier University; University of Waterloo","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Rhizobium leguminosarum; Pisum; Biology; Sativum; Ethylene; Rhizobiaceae; Mutant; Rhizobium; Rhizobia; Nitrogen fixation; Microbiology; Biochemistry; Gene; Botany; Symbiosis; Bacteria; Genetics","authors":[{"name":"Wenbo Ma","is_ca":true},{"name":"Frédérique C. Guinel","is_ca":true},{"name":"Bernard R. Glick","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.00537285993411022,"gpt":0.1543679495053163,"spread":0.1489950895712061,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000128893,0.0002183652,0.0002642047,0.00001777295,0.0001231869,0.00001018183,0.0001245947,0.0001870431,0.0001748481],"category_scores_gemma":[0.000005154842,0.0001069595,0.00005792264,0.00007152145,0.0002578988,0.00004320982,0.0000748097,0.0001024493,0.00005621871],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002790691,"about_ca_system_score_gemma":0.000003423337,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005861555,"about_ca_topic_score_gemma":0.00002228412,"domain_scores_codex":[0.9988651,0.0000659746,0.000274112,0.000411563,0.00005573237,0.0003275237],"domain_scores_gemma":[0.9996372,0.00007287391,0.0001376539,0.00007901621,0.000003399862,0.00006986778],"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":[0.0000226372,0.0001197695,0.01962085,0.000007085584,0.00002431428,0.000002299795,0.00006654061,1.624864e-7,0.9757404,0.000125614,0.00003119757,0.00423914],"study_design_scores_gemma":[0.0003244833,0.0001741206,0.06561168,0.000008310913,0.00002425559,0.00008120866,0.0002386348,0.000001572147,0.9305702,0.0002173015,0.002492483,0.0002557175],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983697,0.0002967049,9.753848e-7,0.00006436087,0.00006661138,0.0002807739,0.0002276082,0.00002814609,0.0006651192],"genre_scores_gemma":[0.9990255,0.00005259087,0.0001877909,0.0001579987,0.00004173116,0.00001491855,0.0004625635,0.000002974424,0.00005397489],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04599084,"threshold_uncertainty_score":0.4361681,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2096403945","doi":"10.1128/aem.02677-10","title":"The Swarming Motility of Pseudomonas aeruginosa Is Blocked by Cranberry Proanthocyanidins and Other Tannin-Containing Materials","year":2011,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":274,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Cranberry Institute; Yale University","keywords":"Swarming motility; Swarming (honey bee); Bacteria; Rhamnolipid; Biofilm; Motility; Pseudomonas aeruginosa; Microbiology; Flagellum; Tannin; Pilus; Biology; Proanthocyanidin; Hydrolyzable Tannin; Polyphenol; Chemistry; Food science; Biochemistry; Escherichia coli; Quorum sensing; Cell biology","authors":[{"name":"C O'May","is_ca":true},{"name":"Nathalie Tufenkji","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.007652079301097257,"gpt":0.1819408263281456,"spread":0.1742887470270484,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001492267,0.0001658673,0.0001865902,0.00001023646,0.0001452758,0.00001056601,0.00007890858,0.0001687081,0.00003977548],"category_scores_gemma":[0.000002778334,0.0001244211,0.0000276109,0.00001226839,0.0005087146,0.00000246087,0.0001659531,0.00005726812,0.000002268835],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000005812324,"about_ca_system_score_gemma":0.000006174001,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000636939,"about_ca_topic_score_gemma":0.000004568995,"domain_scores_codex":[0.9991598,0.00003929671,0.0002220378,0.0003236285,0.00001997401,0.0002352799],"domain_scores_gemma":[0.9996606,0.00001193018,0.0001094941,0.0001722108,0.00000251736,0.00004325298],"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":[0.0001657297,0.00003324978,0.002612175,0.000007426565,0.00004721209,4.042252e-7,0.0002347789,1.711767e-8,0.9953595,0.00004815068,0.00009895292,0.001392368],"study_design_scores_gemma":[0.0004094195,0.0001602189,0.003667706,0.000004393274,0.00001933343,0.00004421864,0.0004001718,4.479917e-7,0.9857309,0.00002076064,0.009412078,0.0001303337],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9986176,0.0005946546,0.000008821303,0.00003133546,0.00006652025,0.0001837923,0.0002165491,0.000004623374,0.0002761307],"genre_scores_gemma":[0.9989407,0.0002944286,0.0002830711,0.000276178,0.00003954102,0.000007608929,0.00007832488,0.00001650122,0.0000636207],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.009628618,"threshold_uncertainty_score":0.5073747,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2154360269","doi":"10.1128/aem.66.6.2491-2501.2000","title":"Isolation and Characterization of Strains CVO and FWKO B, Two Novel Nitrate-Reducing, Sulfide-Oxidizing Bacteria Isolated from Oil Field Brine","year":2000,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Mine drainage and remediation techniques","field":"Environmental Science","cited_by":267,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"University of Calgary","funders":"","keywords":"Sulfur; Thiosulfate; Sulfide; Hydrogen sulfide; Nitrate; Nitrite; Sulfate; Chemistry; Inorganic chemistry; Sulfur cycle; Energy source; Tetrathionate; Sulfate-reducing bacteria; Organic chemistry; Coal","authors":[{"name":"D. Gevertz","is_ca":false},{"name":"Anita J. Telang","is_ca":true},{"name":"Gerrit Voordouw","is_ca":true},{"name":"G. E. Jenneman","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004179148612785177,"gpt":0.1820621091342003,"spread":0.1778829605214151,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00006656878,0.0001454517,0.0001728131,0.00002578611,0.00007985322,0.00001400521,0.00005136007,0.0001172537,0.001811443],"category_scores_gemma":[0.000001532562,0.000137663,0.00001480825,0.00003718742,0.0002108843,0.0001033256,0.00008229933,0.00008143665,0.00001237407],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001937654,"about_ca_system_score_gemma":0.000001791205,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003086372,"about_ca_topic_score_gemma":0.00002224653,"domain_scores_codex":[0.9992521,0.00001888972,0.0002300147,0.0003168641,0.00003152814,0.0001506227],"domain_scores_gemma":[0.9997303,0.00002488541,0.0000934795,0.00009894239,7.874645e-7,0.00005155428],"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":[0.00002988971,0.0000448419,0.001777524,0.000005550682,0.00001025004,4.928665e-7,0.0003884163,0.000002563505,0.9714671,0.00001179574,0.00001396973,0.02624754],"study_design_scores_gemma":[0.00106138,0.0001648164,0.06921437,0.00001731382,0.00003183212,0.00003558361,0.0001240662,0.0004092696,0.9267366,0.0001223629,0.001787855,0.0002945586],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9986386,0.00003716073,0.0005306411,0.00007661083,0.00002019158,0.0001055347,0.0001204069,0.0000209865,0.0004498101],"genre_scores_gemma":[0.996592,0.0006853556,0.001629673,0.0002563241,0.00002901536,0.000007550072,0.0005952069,0.00001125048,0.000193659],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06743685,"threshold_uncertainty_score":0.999101,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2130479858","doi":"10.1128/aem.00068-13","title":"Mountain Pine Beetles Colonizing Historical and Naïve Host Trees Are Associated with a Bacterial Community Highly Enriched in Genes Contributing to Terpene Metabolism","year":2013,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Forest Insect Ecology and Management","field":"Environmental Science","cited_by":264,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true},"ca_institutions":"University of Alberta","funders":"University of Wisconsin-Madison; U.S. Department of Agriculture","keywords":"Dendroctonus; Mountain pine beetle; Biology; Bark beetle; Pinus contorta; Host (biology); Ecology; Terpene; Insect; Herbivore; Bark (sound)","authors":[{"name":"Aaron S. Adams","is_ca":false},{"name":"Frank O. Aylward","is_ca":false},{"name":"Sandye M. Adams","is_ca":false},{"name":"Nadir Erbilgin","is_ca":true},{"name":"Brian H. Aukema","is_ca":false},{"name":"Cameron R. Currie","is_ca":false},{"name":"Garret Suen","is_ca":false},{"name":"Kenneth F. Raffa","is_ca":false}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004960381497740754,"gpt":0.1637885676073392,"spread":0.1588281861095985,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002808332,0.0002209508,0.0003555849,0.00005138646,0.0003122746,0.00002132804,0.0001432294,0.0001561227,0.0002596694],"category_scores_gemma":[0.00001483455,0.0001897797,0.00001732637,0.00008780308,0.0003366114,0.00007712959,0.0006069476,0.0002145866,0.00005480469],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004745202,"about_ca_system_score_gemma":0.000002729542,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001936023,"about_ca_topic_score_gemma":0.003701571,"domain_scores_codex":[0.9987713,0.0001507356,0.0002304906,0.0003317229,0.00004313714,0.0004726693],"domain_scores_gemma":[0.9995289,0.0001202265,0.000112563,0.0001413917,0.00000135903,0.00009555778],"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":[0.0000755877,0.0001988904,0.09312751,0.000003407652,0.00003495534,0.000005557408,0.000462309,0.00003192952,0.9050831,0.00004779773,0.0001567088,0.0007722196],"study_design_scores_gemma":[0.001434589,0.0002046689,0.9917021,0.000007020914,0.00002811251,0.00001667742,0.0006498651,0.00001400288,0.002930395,0.00008900013,0.002669309,0.0002542778],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988105,0.0001335648,0.0000236019,0.0002253614,0.00005741266,0.0005670339,0.00003547619,0.00002170239,0.000125322],"genre_scores_gemma":[0.9986239,0.00005663391,0.0002406398,0.0006790212,0.00001795142,0.0001424948,0.000128278,0.00001492955,0.00009615186],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9021527,"threshold_uncertainty_score":0.7738991,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2117426427","doi":"10.1128/aem.67.3.1335-1342.2001","title":"Habitat Association in Two Genetic Groups of the Insect-Pathogenic Fungus<i>Metarhizium anisopliae</i>: Uncovering Cryptic Species?","year":2001,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Entomopathogenic Microorganisms in Pest Control","field":"Agricultural and Biological Sciences","cited_by":264,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true},"ca_institutions":"Trent University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Metarhizium anisopliae; Species complex; Pathogenic fungus; Population; Insect; Metarhizium; Host (biology); Ecology; Habitat; Zoology; Population genetics; Entomology; Fungus; Biological pest control; Genetics; Botany; Phylogenetic tree; Gene","authors":[{"name":"Michael Bidochka","is_ca":true},{"name":"Andrena M. Kamp","is_ca":true},{"name":"Thomas Michael Lavender","is_ca":true},{"name":"J.N. Amritha De Croos","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004832352946960238,"gpt":0.1594125363547125,"spread":0.1545801834077523,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001938634,0.0001804156,0.0002530918,0.00001443654,0.000101118,0.00001393698,0.0002414097,0.0001188274,0.0003024061],"category_scores_gemma":[0.00001157624,0.00008308465,0.00007960764,0.0001534218,0.0001298016,0.00003284249,0.00021472,0.0001595945,0.0000331003],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001532692,"about_ca_system_score_gemma":0.000004459588,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006096895,"about_ca_topic_score_gemma":0.0006854894,"domain_scores_codex":[0.9988289,0.00009294795,0.0003184621,0.0003434898,0.00007310411,0.0003431204],"domain_scores_gemma":[0.9995466,0.0001333609,0.0001802178,0.00009561812,0.000003447719,0.0000407716],"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":[0.00001852595,0.00005569883,0.2549657,0.000002281159,0.00001141697,0.000002126882,0.00005079039,0.0000232282,0.743234,0.00004409926,0.00001340634,0.001578689],"study_design_scores_gemma":[0.0007028733,0.00010036,0.9452873,0.000007970107,0.00003361804,0.00007560912,0.0002110932,0.000009949873,0.04947775,0.0005468733,0.003330649,0.0002159169],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983824,0.0006664925,0.0000064459,0.0001341331,0.0001366605,0.0002959754,0.00008488556,0.00001257854,0.0002804552],"genre_scores_gemma":[0.9988427,0.0003979304,0.00009346379,0.0003590159,0.00008766633,0.00001701844,0.00005421027,0.000002798112,0.0001451969],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6937563,"threshold_uncertainty_score":0.3388094,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2012445035","doi":"10.1128/aem.01451-14","title":"Evaluating Bias of Illumina-Based Bacterial 16S rRNA Gene Profiles","year":2014,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":261,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false},"ca_institutions":"Wilfrid Laurier University; University of Waterloo","funders":"Canadian Institutes of Health Research","keywords":"Amplicon; Pooling; Biology; Amplicon sequencing; Metagenomics; Illumina dye sequencing; 16S ribosomal RNA; Massive parallel sequencing; Computational biology; Genetics; DNA sequencing; Deep sequencing; Polymerase chain reaction; Gene; Genome; Computer science; Artificial intelligence","authors":[{"name":"Katherine M. Kennedy","is_ca":true},{"name":"Michael Hall","is_ca":true},{"name":"Michael D. J. Lynch","is_ca":true},{"name":"Gabriel Moreno‐Hagelsieb","is_ca":true},{"name":"Josh D. Neufeld","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.01909809877181859,"gpt":0.2235709644622311,"spread":0.2044728656904125,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0004060497,0.0001995606,0.0003139087,0.00002974562,0.0001867445,0.00000456137,0.0002305184,0.0002066763,0.004858567],"category_scores_gemma":[0.00001521095,0.000182821,0.00005048092,0.00004505937,0.001153912,0.00002987543,0.0003641124,0.000171805,0.000230383],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004560945,"about_ca_system_score_gemma":0.000006306519,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006601767,"about_ca_topic_score_gemma":0.00003839218,"domain_scores_codex":[0.9987411,0.0002681019,0.0002984116,0.0003478632,0.00003764848,0.0003068706],"domain_scores_gemma":[0.9992909,0.0001906007,0.0001732781,0.0002848927,0.000001145796,0.00005917111],"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":[0.00009315512,0.0001145884,0.005740973,0.000009316578,0.00001329974,3.00476e-7,0.0001239942,0.0001979061,0.9892499,0.00007584633,0.0002366413,0.004144023],"study_design_scores_gemma":[0.00222897,0.001044573,0.0676337,0.000009437864,0.00006214905,0.00004465003,0.0001505207,0.0004246976,0.9075215,0.0008755233,0.01945854,0.0005457338],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998088,0.00001917232,0.00008612005,0.00005135176,0.0001049594,0.0002371215,0.00006451452,0.00001620884,0.001332543],"genre_scores_gemma":[0.9964346,0.00001502854,0.002398464,0.0004623427,0.00004286253,0.00002176023,0.0005564485,0.00001529951,0.00005323679],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08172845,"threshold_uncertainty_score":0.9960511,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W2099586826","doi":"10.1128/aem.69.1.275-284.2003","title":"Degradation of Polycyclic Aromatic Hydrocarbons at Low Temperature under Aerobic and Nitrate-Reducing Conditions in Enrichment Cultures from Northern Soils","year":2003,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":260,"is_retracted":false,"has_abstract":true,"routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false},"ca_institutions":"University of British Columbia","funders":"National Science Council","keywords":"Biodegradation; Phenanthrene; Environmental chemistry; Enrichment culture; Chemistry; Pyrene; Polycyclic aromatic hydrocarbon; Biology; Organic chemistry; Bacteria","authors":[{"name":"Mikael Eriksson","is_ca":true},{"name":"Erik Södersten","is_ca":true},{"name":"Zhongtang Yu","is_ca":true},{"name":"Gunnel Dalhammar","is_ca":false},{"name":"William W. Mohn","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.003927279768828506,"gpt":0.1814784252354655,"spread":0.177551145466637,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00006418785,0.0001764832,0.0001924527,0.00003221069,0.00009817123,0.000009433144,0.00005989513,0.0001509916,0.0002858481],"category_scores_gemma":[0.000002677025,0.000150671,0.00002401925,0.00006702788,0.0003437107,0.00004587734,0.00006389648,0.00009978851,0.00005947645],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001338676,"about_ca_system_score_gemma":0.000004722621,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001957183,"about_ca_topic_score_gemma":0.0006641797,"domain_scores_codex":[0.9990928,0.00005575986,0.0002530415,0.0003445544,0.00004718938,0.0002066511],"domain_scores_gemma":[0.9996813,0.00003629479,0.0001020266,0.0001142477,1.730289e-7,0.000065956],"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":[0.00001016136,0.0001104596,0.02960099,0.000002324981,0.00001419067,7.731642e-7,0.0003489499,0.00004549407,0.9696925,0.00001130037,0.000084127,0.0000787199],"study_design_scores_gemma":[0.001183776,0.00005733531,0.1707512,0.00001770266,0.00002971398,0.0000293996,0.001048976,0.00001036205,0.8258603,0.0005100945,0.0001888731,0.0003123213],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.999097,0.0001600211,0.000002905953,0.00005234489,0.00003993458,0.000229916,0.00006651885,0.000008326934,0.0003429686],"genre_scores_gemma":[0.9988045,0.0001620616,0.0001367989,0.0002642472,0.000006075366,0.000009438497,0.0004838121,0.000009539292,0.0001235377],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1438323,"threshold_uncertainty_score":0.6144186,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null},{"id":"W1966390029","doi":"10.1128/aem.02517-05","title":"Biodiversity and Classification of Lactococcal Phages","year":2006,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":256,"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":"Lactococcus lactis; Lactococcus; Biology; Bacteria; Bacteriophage; Microbiology; Metagenomics; Genome; Siphoviridae; Computational biology; Genetics; Gene; Escherichia coli; Lactic acid","authors":[{"name":"Hélène Deveau","is_ca":true},{"name":"Simon J. Labrie","is_ca":true},{"name":"Marie‐Christine Chopin","is_ca":false},{"name":"Sylvain Moineau","is_ca":true}],"retraction":null,"screen_n_in":null,"score":{"opus":0.004789283944480025,"gpt":0.1725174089619271,"spread":0.167728125017447,"validation_status":"score_only:v0-immature-baseline"},"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00003055046,0.00008362954,0.00009796506,0.000015067,0.00007469391,0.000005504169,0.00004390586,0.00006695008,0.000626674],"category_scores_gemma":[3.732633e-7,0.00007774002,0.00001726722,0.00002127305,0.0004740905,0.00004560944,0.0001287422,0.00005402037,0.0001126288],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002831563,"about_ca_system_score_gemma":7.232119e-7,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001847454,"about_ca_topic_score_gemma":0.00003367823,"domain_scores_codex":[0.9995563,0.00001126193,0.0001088836,0.0001976551,0.0000144297,0.0001114567],"domain_scores_gemma":[0.9998351,0.00001476728,0.00005476299,0.00006984534,3.411675e-7,0.00002523413],"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":[0.00001072725,0.0000593498,0.02210508,0.000002479034,0.000004331597,4.661121e-7,0.00003624755,0.000001670991,0.9748774,0.00006792579,0.0007011087,0.002133239],"study_design_scores_gemma":[0.000314922,0.00003734742,0.8970428,0.000001363674,0.00001630476,0.00004115677,0.0001272494,0.000005277582,0.08136325,0.0000764829,0.02086569,0.0001082088],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9972686,0.00004201846,0.00003737974,0.00008002677,0.00002455227,0.0001095485,0.00009119566,0.000008329368,0.002338307],"genre_scores_gemma":[0.9993711,0.00005568917,0.0002258445,0.00007397353,0.000009663973,0.000003988381,0.0001163238,0.00000308779,0.000140358],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8935142,"threshold_uncertainty_score":0.6861641,"prediction_status":"machine_predicted_unvalidated"},"labels":[],"label_agreement":null}]}