{"id":"W2562762368","doi":"10.1093/jhered/esw077","title":"Combining Genotype, Phenotype, and Environment to Infer Potential Candidate Genes","year":2016,"lang":"en","type":"article","venue":"Journal of Heredity","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":35,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Single-nucleotide polymorphism; Genetics; Candidate gene; Phenotype; Quantitative trait locus; Gene; Local adaptation; Phenotypic trait; SNP; Adaptation (eye); Population; Genotype; Computational biology","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":[0.0001025817,0.00006473434,0.00008848299,0.00002612145,0.00004803397,0.00001193661,0.00008366119,0.00006329158,0.00009709307],"category_scores_gemma":[0.00001955819,0.00004476023,0.00003608381,0.00001561718,0.00002961286,0.000004613948,0.00008339864,0.0000377781,0.000008034292],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008169322,"about_ca_system_score_gemma":0.00002457656,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000006926648,"about_ca_topic_score_gemma":0.000006103194,"domain_scores_codex":[0.9995373,0.00002739098,0.0001355188,0.00009079158,0.0001178437,0.0000911797],"domain_scores_gemma":[0.9996595,0.000003988992,0.00009129267,0.00009395608,0.00004790233,0.0001033991],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003031254,0.00003269051,0.06259587,0.000008274886,0.000113202,0.0000181946,0.0000975305,0.0004248496,0.8852114,0.00003737652,0.00659536,0.04456211],"study_design_scores_gemma":[0.002293212,0.0008626885,0.5335299,0.00002924628,0.00009307305,0.0001797099,0.00008779954,0.000006656959,0.09386913,0.0007232704,0.3680197,0.0003056465],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993434,0.0003451229,0.005312736,0.0004432586,0.0003220153,0.00003509199,0.00001774027,0.000001163867,0.00008886547],"genre_scores_gemma":[0.9975632,0.0002522128,0.001375649,0.0001549038,0.0003716288,2.177627e-7,0.000002881927,0.000004678054,0.0002746214],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7913423,"threshold_uncertainty_score":0.1825269,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007548770329783055,"score_gpt":0.2124083649356295,"score_spread":0.2048595946058464,"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."}}