{"id":"W2892830939","doi":"10.1016/j.meegid.2018.09.020","title":"Robust demarcation of fourteen different species groups within the genus Streptococcus based on genome-based phylogenies and molecular signatures","year":2018,"lang":"en","type":"article","venue":"Infection Genetics and Evolution","topic":"Streptococcal Infections and Treatments","field":"Medicine","cited_by":50,"is_retracted":false,"has_abstract":false,"ca_institutions":"McMaster University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Clade; Phylogenetic tree; Genetics; Phylogenetics; rpoB; Evolutionary biology; Genome; Genus; Zoology; Gene","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":[],"consensus_categories":[],"category_scores_codex":[0.00009672185,0.0001588715,0.0001619895,0.0001566596,0.0002292619,0.00002682483,0.00002386374,0.0001022173,0.0000277869],"category_scores_gemma":[0.00003400599,0.0001085912,0.00006481373,0.0001675191,0.0002421404,0.00002163254,0.00001810223,0.0001008478,0.000002295376],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008600653,"about_ca_system_score_gemma":0.00003830178,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009682223,"about_ca_topic_score_gemma":0.00007762231,"domain_scores_codex":[0.9991995,0.00006397438,0.0002086599,0.0002313725,0.0001705395,0.0001259704],"domain_scores_gemma":[0.9993587,0.00005278876,0.0001308227,0.0002171362,0.0001743882,0.00006614285],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001972715,0.000421131,0.9285263,0.00009228937,0.0001485407,0.000002310933,0.000101994,0.01081068,0.05582191,0.001268049,0.00003484665,0.002574653],"study_design_scores_gemma":[0.001039675,0.001539637,0.9348081,0.00005398891,0.0001823452,0.000005449093,0.00002544751,0.03799992,0.02371117,0.0003912337,0.0001432826,0.00009977981],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9757814,0.0003482231,0.02263927,0.0001387614,0.0001476761,0.0006218955,0.00001440954,0.00002895888,0.0002793407],"genre_scores_gemma":[0.9993285,0.00004029348,0.0002770638,0.00007897932,0.0001370275,0.00006697619,0.00003683004,0.00001377166,0.00002058107],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03211075,"threshold_uncertainty_score":0.4428222,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.019500104892403,"score_gpt":0.2431220489217945,"score_spread":0.2236219440293915,"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."}}