{"id":"W2612900130","doi":"10.1101/135491","title":"African nonhuman primates are infected with the yaws bacterium <i>Treponema pallidum</i> subsp. <i>pertenue</i>","year":2017,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Syphilis Diagnosis and Treatment","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"Canadian Institutes of Health Research; Max-Planck-Institut für Evolutionäre Anthropologie; Grantová Agentura České Republiky; Max-Planck-Gesellschaft; Deutsche Forschungsgemeinschaft; Natural Sciences and Engineering Research Council of Canada; Fondation Méditerranée Infection; Agence Nationale de la Recherche; Deutscher Akademischer Austauschdienst; National Science Foundation","keywords":"Treponema; Biology; Subspecies; African Green Monkey; Simian; Virology; Genome; Syphilis; Strain (injury); Bacteria; Microbiology; Gene; Genetics; Virus; Zoology","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004659013,0.001072144,0.001392748,0.000206795,0.0006068791,0.0005975072,0.0007860553,0.0005657885,0.00009435254],"category_scores_gemma":[0.0002452694,0.0007076315,0.0003531722,0.0003119837,0.0004301366,0.0001543908,0.0005551346,0.001066916,0.0001142496],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004184237,"about_ca_system_score_gemma":0.0007679289,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002090111,"about_ca_topic_score_gemma":0.00008333443,"domain_scores_codex":[0.9961596,0.0001582856,0.0006081008,0.001432232,0.0007635327,0.000878288],"domain_scores_gemma":[0.9933442,0.0001662659,0.001225541,0.003851314,0.0009195153,0.000493134],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0005183311,0.002688961,0.7969967,0.001875098,0.003041782,0.002373773,0.0001419018,0.00001529755,0.1840662,0.000199943,0.008068519,0.00001352349],"study_design_scores_gemma":[0.002089605,0.000323043,0.887224,0.001779733,0.001414489,5.519947e-7,0.0000123154,0.00002319627,0.0792983,9.385805e-7,0.02691118,0.0009227048],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9886168,0.00226039,0.00002644766,0.005135935,0.0006374475,0.002171446,0.0004379788,0.0005575888,0.0001559413],"genre_scores_gemma":[0.9955009,0.0007512408,0.0005633202,0.0009377339,0.0008352905,0.001107812,0.00000421453,0.0002728696,0.00002664349],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1047679,"threshold_uncertainty_score":0.9995375,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0182820213571127,"score_gpt":0.2295256194529429,"score_spread":0.2112435980958302,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}