{"id":"W3189007228","doi":"10.1128/msystems.00495-21","title":"Population Genomics of <i>emm4</i> Group A Streptococcus Reveals Progressive Replacement with a Hypervirulent Clone in North America","year":2021,"lang":"en","type":"article","venue":"mSystems","topic":"Streptococcal Infections and Treatments","field":"Medicine","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Ontario; Alberta Health; Provincial Laboratory of Public Health; Alberta Health Services; Sinai Health System; University of Alberta; Lunenfeld-Tanenbaum Research Institute; University of Toronto","funders":"National Institute of Allergy and Infectious Diseases","keywords":"Biology; Population; Gene; clone (Java method); Genome; Streptococcus; Genetics; Streptococcus pyogenes; Molecular epidemiology; Genotype; Bacteria","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00007120542,0.0001559896,0.0004634435,0.00009401811,0.00003871396,0.00001370793,0.00003283028,0.00005138755,0.00004891342],"category_scores_gemma":[0.00002271277,0.0001202158,0.00007350986,0.0004945815,0.00002986781,0.0000418093,0.00003053387,0.00009340091,0.0000113317],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002636132,"about_ca_system_score_gemma":0.00006631958,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000906566,"about_ca_topic_score_gemma":0.0006555988,"domain_scores_codex":[0.9987083,0.0000762105,0.0004687885,0.0003279366,0.0002200548,0.0001987018],"domain_scores_gemma":[0.9990968,0.0000296518,0.0002586322,0.0004051888,0.0001204422,0.00008933715],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0002353646,0.0007957146,0.9930915,0.00023261,0.0001742133,0.0001923581,0.0002295044,0.00009497583,0.001757665,0.00003139903,0.00004458891,0.003120166],"study_design_scores_gemma":[0.00430683,0.001563585,0.9883748,0.0007240028,0.0001707674,0.0001522305,0.0006498144,0.0002457619,0.001444466,0.00000889415,0.00218055,0.0001783502],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9968686,0.000611504,0.00007364818,0.00006583958,0.0000809129,0.001600332,0.00003623088,0.00003120114,0.0006316938],"genre_scores_gemma":[0.9980971,0.00003677231,0.0006938163,0.00005894069,0.00006008818,0.0005397119,0.0003046746,0.0000210651,0.0001878001],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004716693,"threshold_uncertainty_score":0.4902259,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0140549136216846,"score_gpt":0.2600342261619017,"score_spread":0.2459793125402171,"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."}}