{"id":"W2594939779","doi":"10.1534/genetics.116.197541","title":"Prophage Provide a Safe Haven for Adaptive Exploration in Temperate Viruses","year":2017,"lang":"en","type":"article","venue":"Genetics","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"","keywords":"Prophage; Biology; Lytic cycle; Genetics; Temperate climate; Genetic Fitness; Mutation; Evolutionary biology; Virus; Gene; Ecology; Bacteriophage; 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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001372672,0.0001307003,0.0001108602,0.00003283718,0.0002005859,0.00006656474,0.0001996049,0.0001288076,0.000004878415],"category_scores_gemma":[0.00009411043,0.000132429,0.00005313999,0.00002231735,0.00008709824,0.000007008479,0.0001050972,0.00005026062,0.00001055144],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001753605,"about_ca_system_score_gemma":0.0001131025,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001508529,"about_ca_topic_score_gemma":0.001619336,"domain_scores_codex":[0.9991773,0.00003026645,0.0001935199,0.0002982539,0.00008311636,0.0002175217],"domain_scores_gemma":[0.9992293,0.000004856146,0.0001178631,0.0004887722,0.0001041128,0.00005507424],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004693079,0.0002037741,0.01671633,0.0000610784,0.00006506653,0.000006064,0.0003592141,0.007433312,0.9574287,0.0007519493,0.004360398,0.01214482],"study_design_scores_gemma":[0.006379043,0.002789969,0.0700497,0.00008400816,0.00008104438,0.00002162646,0.0007470081,0.06330965,0.6934664,0.00493376,0.156745,0.001392772],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9562275,0.0006092222,0.04052825,0.0003586102,0.0002297086,0.001035838,0.0000810524,0.00001293411,0.0009168857],"genre_scores_gemma":[0.9852591,0.0001812957,0.01242459,0.0002170531,0.0001936879,0.0001546705,0.00006874269,0.00002546112,0.001475438],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2639623,"threshold_uncertainty_score":0.5400299,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04429967186695968,"score_gpt":0.311771345939695,"score_spread":0.2674716740727353,"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."}}