{"id":"W3156723047","doi":"10.1186/s13073-021-00858-2","title":"A community-driven resource for genomic epidemiology and antimicrobial resistance prediction of Neisseria gonorrhoeae at Pathogenwatch","year":2021,"lang":"en","type":"article","venue":"Genome Medicine","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":125,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"National Institute of Allergy and Infectious Diseases; European Centre for Disease Prevention and Control; Conselleria de Sanitat Universal i Salut Pública; Wellcome Trust; Wellcome; World Health Organization; National Institute for Health and Care Research; Li Ka Shing Foundation; U.S. Department of Veterans Affairs; National Institutes of Health; National Science Foundation","keywords":"Neisseria gonorrhoeae; Antibiotic resistance; Men who have sex with men; Public health; Gonorrhea; Genomics; Medicine; Molecular epidemiology; Azithromycin; Biology; Genetics; Genome; Virology; Genotype; Antibiotics; Syphilis","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.005499561,0.002339587,0.001546858,0.007716354,0.001243742,0.003036248,0.00302294,0.002380279,0.02476894],"category_scores_gemma":[0.0184846,0.001119435,0.00165023,0.006463379,0.0005774486,0.003718718,0.008203402,0.002491141,0.02496081],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008901411,"about_ca_system_score_gemma":0.004260227,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.009583135,"about_ca_topic_score_gemma":0.01130925,"domain_scores_codex":[0.9970783,0.0005582813,0.0003072362,0.001000265,0.0007556244,0.0003002614],"domain_scores_gemma":[0.9909142,0.00237219,0.000927378,0.002514275,0.001709781,0.0015622],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.002297856,0.0003214963,0.03229116,0.006541044,0.0006550048,0.001428005,0.001720049,0.005391693,0.0219371,0.005409908,0.772393,0.1496136],"study_design_scores_gemma":[0.0006268171,0.0003330417,0.05127032,0.002189067,0.0004456969,0.0008368101,0.0007904473,0.02071557,0.01538511,0.01639865,0.8905162,0.0004923182],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.009921746,0.001661376,0.03284002,0.001020418,0.0004632987,0.0006174124,0.8262712,0.1198797,0.007324683],"genre_scores_gemma":[0.02018139,0.0007818037,0.06119688,0.0005409068,0.0001305273,0.0006334531,0.9069719,0.007481844,0.002081247],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.02476894,"threshold_uncertainty_score":0.08286041,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05317493685720472,"score_gpt":0.3076978842285473,"score_spread":0.2545229473713426,"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."}}