{"id":"W3108803531","doi":"10.3389/fgene.2020.600116","title":"The Integration of Genome Mining, Comparative Genomics, and Functional Genetics for Biosynthetic Gene Cluster Identification","year":2020,"lang":"en","type":"article","venue":"Frontiers in Genetics","topic":"Microbial Natural Products and Biosynthesis","field":"Medicine","cited_by":30,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Regina","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Genome; Biology; Gene cluster; Comparative genomics; Gene; Genomics; Genetics; Functional genomics; Computational biology; Antibiotic resistance; Antibiotics","routes":{"ca_aff":true,"ca_fund":true,"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":[0.000202594,0.0001225673,0.0002401764,0.00006201975,0.00008428512,0.00002656139,0.00008479021,0.00008467944,0.000004796017],"category_scores_gemma":[0.000104488,0.00008980439,0.00005386238,0.0001311853,0.0001824736,0.00002122816,0.00003810672,0.00008801571,0.000001488826],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000476057,"about_ca_system_score_gemma":0.0000475044,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000001420113,"about_ca_topic_score_gemma":0.000007347962,"domain_scores_codex":[0.9990447,0.00004007978,0.0003933643,0.0002625561,0.0001126879,0.0001466568],"domain_scores_gemma":[0.9994059,0.00005617187,0.0001572424,0.0001676033,0.0001494883,0.00006355474],"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":[0.0006143308,0.00004676015,0.002104613,0.00008775462,0.00009797049,3.931928e-7,0.001946709,0.0002864596,0.9689181,0.00002605611,0.009898762,0.0159721],"study_design_scores_gemma":[0.001388144,0.0004598778,0.03808898,0.00003437373,0.0002376005,0.000009983444,0.001689535,0.05636637,0.8594171,0.0002792434,0.04178154,0.0002472762],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.94568,0.009711994,0.03868381,0.004295419,0.0005109212,0.00100312,0.00007424715,0.00001035483,0.00003014595],"genre_scores_gemma":[0.9517052,0.001706868,0.04576514,0.0003015964,0.0002322248,0.000005364517,0.00007029514,0.00001540579,0.0001979558],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.109501,"threshold_uncertainty_score":0.3662117,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03990161863219789,"score_gpt":0.2585687899360942,"score_spread":0.2186671713038963,"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."}}