{"id":"W3127808000","doi":"10.1016/j.tim.2021.01.005","title":"Evolution of Microbial Genomics: Conceptual Shifts over a Quarter Century","year":2021,"lang":"en","type":"review","venue":"Trends in Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":75,"is_retracted":false,"has_abstract":false,"ca_institutions":"","funders":"U.S. National Library of Medicine; National Institutes of Health; U.S. Department of Health and Human Services","keywords":"Biology; Genomics; Evolutionary biology; Population genomics; Quarter (Canadian coin); Microbial genetics; Computational biology; Genetics; Genome; Bacteria; Gene","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow","insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0003304433,0.0004951949,0.002110727,0.0003026181,0.00008266768,0.000005953043,0.0008088969,0.001210936,0.02532393],"category_scores_gemma":[0.00002177988,0.0004702047,0.0005379313,0.0005838838,0.001262745,0.00005667653,0.00080294,0.0009941874,0.0004531928],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008364889,"about_ca_system_score_gemma":0.0001205921,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000422261,"about_ca_topic_score_gemma":0.003099826,"domain_scores_codex":[0.9960842,0.001633401,0.0009703356,0.0006758458,0.00003305191,0.0006031643],"domain_scores_gemma":[0.9984795,0.000256802,0.0005195668,0.0006776423,0.00001042018,0.00005608861],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00018288,0.001826452,0.0009232617,0.002028726,0.0007336157,0.0001162797,0.004066829,0.00008671132,0.09420767,0.001955901,0.1632672,0.7306045],"study_design_scores_gemma":[0.0004180529,0.000128909,0.000213833,0.0004695157,0.0001447732,0.00009721905,0.00006665907,6.380595e-7,0.00002020178,0.00003649613,0.9979898,0.0004139403],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.01150421,0.9852583,0.000005134499,0.00001494551,0.000826042,0.000263264,0.0004693695,0.00002033348,0.001638408],"genre_scores_gemma":[0.004271353,0.9917253,0.0002641038,0.0001275901,0.0001190647,0.00003167034,0.003053413,0.00004839478,0.0003591533],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.8347225,"threshold_uncertainty_score":0.999775,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02427374324904663,"score_gpt":0.2861023907750896,"score_spread":0.261828647526043,"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."}}