{"id":"W4382789260","doi":"10.24072/pci.evolbiol.100644","title":"How the tubercle bacillus got its genome: modernising, modelling, and making sense of the stories we tell","year":2023,"lang":"en","type":"article","venue":"Peer Community in Evolutionary Biology","topic":"Genetics, Bioinformatics, and Biomedical Research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"","keywords":"Tubercle; Bacillus (shape); Sense (electronics); Biology; Genome; Genetics; Gene; Bacteria; Engineering; Bacilli","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":[0.001013645,0.000140896,0.0001626942,0.00008150336,0.0004081894,0.00002223076,0.000522359,0.0002289123,0.000005985545],"category_scores_gemma":[0.000485,0.00009160995,0.00007054308,0.0002333202,0.0008903359,0.000006896124,0.0010665,0.0004752046,0.000005312852],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002965977,"about_ca_system_score_gemma":0.0001028714,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001884355,"about_ca_topic_score_gemma":0.0003485555,"domain_scores_codex":[0.9984474,0.000586712,0.000246545,0.0001482138,0.0002223002,0.0003487867],"domain_scores_gemma":[0.9989032,0.0001620907,0.00008628071,0.0005780858,0.0002205674,0.00004977899],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.001155338,0.001466973,0.05500042,0.001653677,0.0009091981,0.00001870291,0.04666934,0.0522526,0.7678121,0.005146562,0.03027937,0.03763572],"study_design_scores_gemma":[0.002401469,0.001686667,0.1296261,0.0001852087,0.00007769205,0.0002052762,0.02547323,0.2625571,0.01670273,0.01535386,0.5445727,0.001157953],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9879887,0.002832614,0.001302793,0.006776117,0.0001819662,0.0002493489,0.0001539433,0.00001363488,0.000500941],"genre_scores_gemma":[0.9956995,0.002165767,0.0002938953,0.0001389379,0.00007867781,0.00001271266,0.0001582439,0.0000105579,0.001441717],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7511094,"threshold_uncertainty_score":0.3735745,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06800387369015048,"score_gpt":0.3041397611111079,"score_spread":0.2361358874209574,"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."}}