{"id":"W2161384597","doi":"10.1534/genetics.108.092254","title":"Bayesian Comparisons of Codon Substitution Models","year":2008,"lang":"en","type":"article","venue":"Genetics","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":28,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; University of Ottawa; Canadian Institute for Advanced Research","funders":"","keywords":"Nonsynonymous substitution; Substitution (logic); Bayes' theorem; Codon usage bias; Synonymous substitution; Genetic code; Biology; Probabilistic logic; Bayesian probability; Amino acid substitution; Computational biology; Computer science; Genetics; Artificial intelligence; Amino acid; Genome; Gene; Mutation","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":[0.03346993,0.0010078,0.002094253,0.004542937,0.001517134,0.004312675,0.002823543,0.002926175,0.003658892],"category_scores_gemma":[0.1293447,0.0008710187,0.001879811,0.002617946,0.002219609,0.00499011,0.002438892,0.002700882,0.0007218888],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.002908968,"about_ca_system_score_gemma":0.001511478,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003742342,"about_ca_topic_score_gemma":0.003986696,"domain_scores_codex":[0.9819104,0.0123498,0.0008472175,0.001928642,0.002441761,0.0005221691],"domain_scores_gemma":[0.9140745,0.07683855,0.002216245,0.003544871,0.002491499,0.0008343566],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0006649469,0.0000714323,0.01005955,0.0003173546,0.000659676,0.0001734576,0.0007319343,0.4844202,0.0007427491,0.4329766,0.002530871,0.06665139],"study_design_scores_gemma":[0.00007030738,0.00008174441,0.003624067,0.0001046658,0.00008643405,0.0001235818,0.0001305403,0.5864294,0.0002406948,0.4070064,0.002029283,0.00007293159],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.2048699,0.004394456,0.7735066,0.00216914,0.0002066245,0.0001636951,0.0008862115,0.0005049512,0.01329835],"genre_scores_gemma":[0.8805981,0.001699027,0.1134351,0.0004588933,0.0002268508,0.0002604434,0.001718992,0.0003197011,0.001282928],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.03346993,"threshold_uncertainty_score":0.177008,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03284451916791449,"score_gpt":0.2443446322328265,"score_spread":0.211500113064912,"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."}}