{"id":"W2136134669","doi":"10.1128/jb.187.10.3311-3318.2005","title":"Mosaic Prophages with Horizontally Acquired Genes Account for the Emergence and Diversification of the Globally Disseminated M1T1 Clone of <i>Streptococcus pyogenes</i>","year":2005,"lang":"en","type":"article","venue":"Journal of Bacteriology","topic":"Streptococcal Infections and Treatments","field":"Medicine","cited_by":124,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Mount Sinai Hospital","funders":"National Institutes of Health; National Institute of Allergy and Infectious Diseases; U.S. Department of Veterans Affairs","keywords":"Biology; Prophage; Streptococcus pyogenes; clone (Java method); Gene; Genetics; Diversification (marketing strategy); Streptococcus pneumoniae; Virology; Microbiology; Bacteriophage; Bacteria; Staphylococcus aureus; Escherichia coli","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":[0.00009619125,0.0003798137,0.0002489281,0.0004363176,0.0002483113,0.0003655801,0.0001751458,0.0002858584,0.0007318035],"category_scores_gemma":[0.0003148096,0.0001801927,0.0003868972,0.0003664444,0.000183888,0.0001417356,0.0003350558,0.0005022769,0.0003424219],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000300815,"about_ca_system_score_gemma":0.0002525592,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009977687,"about_ca_topic_score_gemma":0.0009102855,"domain_scores_codex":[0.9998977,0.000006441245,0.000007891331,0.00002644492,0.00002816024,0.00003339872],"domain_scores_gemma":[0.9997844,0.00003270595,0.00007740394,0.00002015678,0.00001883461,0.00006650091],"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":[0.0002122492,0.00004328449,0.01445916,0.00005103332,0.00001547995,0.0004100515,0.0001178765,0.00008960265,0.9808593,0.0001151286,0.00004969889,0.003577198],"study_design_scores_gemma":[0.00005493576,0.0008330923,0.7108275,0.00004654203,0.0001696039,0.005802703,0.0005747328,0.003117157,0.2731088,0.0003328475,0.005093723,0.00003830299],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990601,0.0001341415,0.000395573,0.00001862333,0.000003777816,0.00001313111,0.0001595356,0.00001289403,0.000202209],"genre_scores_gemma":[0.9958287,0.0001983428,0.001960345,0.00003687037,0.00001287827,0.00002853097,0.001237688,0.00001667943,0.0006800783],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009977687,"threshold_uncertainty_score":0.002448082,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01363052781820529,"score_gpt":0.2690178834476356,"score_spread":0.2553873556294303,"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."}}