{"id":"W4280590972","doi":"10.1093/gbe/evac074","title":"Genomics of Diversification of <i>Pseudomonas aeruginosa</i> in Cystic Fibrosis Lung-like Conditions","year":2022,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ontario Genomics; University of Ottawa","funders":"","keywords":"Biology; Pseudomonas aeruginosa; Nonsynonymous substitution; Biological dispersal; Genetics; Population; Experimental evolution; Cystic fibrosis; Evolutionary biology; Phenotype; Gene; Genome; 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":[0.0001931143,0.00008021676,0.0001289618,0.00008334988,0.0001042887,0.000001270954,0.0001072187,0.0000958976,0.00003412734],"category_scores_gemma":[0.00001828914,0.00009357424,0.00004569466,0.0001317257,0.0001794635,0.000002690668,0.0001472994,0.00006792518,0.000001036472],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005605882,"about_ca_system_score_gemma":0.00007001081,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006562471,"about_ca_topic_score_gemma":0.00003711549,"domain_scores_codex":[0.9992506,0.0001149776,0.0002376035,0.0002146353,0.00004814306,0.000134057],"domain_scores_gemma":[0.9996061,0.00001353917,0.0001358089,0.0001684247,0.00004658775,0.0000295655],"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":[0.0001271732,0.00008505603,0.1356761,0.00002629611,0.00002815157,2.036119e-7,0.0001024762,0.003968033,0.8571604,0.002574943,0.0001684059,0.00008275502],"study_design_scores_gemma":[0.001448865,0.0008823329,0.975553,0.000006862343,0.0000653508,0.00002932279,0.0007144354,0.00336867,0.004645969,0.00250238,0.0104816,0.0003012072],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9918483,0.002772332,0.00444885,0.00005373073,0.0001202449,0.000160217,0.0004430088,0.000004322521,0.0001489739],"genre_scores_gemma":[0.9980039,0.000301691,0.0004533368,0.00003807166,0.00002281264,0.00003502561,0.001049323,0.000005686195,0.00009016812],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8525145,"threshold_uncertainty_score":0.3815846,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005028172435282407,"score_gpt":0.2244764494155529,"score_spread":0.2194482769802704,"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."}}