{"id":"W2603660171","doi":"10.1186/s12864-017-3660-3","title":"Highly localized divergence within supergenes in Atlantic cod (Gadus morhua) within the Gulf of Maine","year":2017,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":50,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"","keywords":"Gadus; Biology; Linkage disequilibrium; Atlantic cod; Evolutionary biology; Genetics; Population; Single-nucleotide polymorphism; Nucleotide diversity; Genetic variation; Haplotype; Gene; Fishery; Allele; Genotype","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":[],"consensus_categories":[],"category_scores_codex":[0.0002400482,0.0001389043,0.000172131,0.00002768838,0.0002107337,0.00003582278,0.0006115219,0.0001426956,0.00002177342],"category_scores_gemma":[0.0001130587,0.0001114809,0.00007723527,0.00004072972,0.0001932779,0.000004628791,0.0003036579,0.00007866067,0.00001095703],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001189058,"about_ca_system_score_gemma":0.0001051089,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003717394,"about_ca_topic_score_gemma":0.002179224,"domain_scores_codex":[0.9991189,0.00006177595,0.0002759183,0.0002533761,0.0001284722,0.0001616192],"domain_scores_gemma":[0.9989293,0.00001026572,0.0002431877,0.0007001527,0.0000667574,0.00005037278],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003921262,0.00003897436,0.7226636,0.00004967966,0.00005737722,0.00000497079,0.0008309592,0.02368986,0.2503903,0.001237151,0.0005373679,0.0001076414],"study_design_scores_gemma":[0.003046941,0.0002426964,0.6369013,0.00004148585,0.0001121736,0.00003300961,0.001376741,0.002579322,0.3424798,0.002109045,0.01042206,0.0006554059],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9978273,0.000235189,0.001011642,0.0001071452,0.0004511748,0.0001807505,0.00004237029,0.000003959476,0.0001404982],"genre_scores_gemma":[0.996592,0.0001028124,0.002577342,0.00006653473,0.00009824032,0.000002813405,0.00007882843,0.0000115553,0.000469811],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0920895,"threshold_uncertainty_score":0.4546059,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02043642017798506,"score_gpt":0.2403653241848578,"score_spread":0.2199289040068727,"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."}}