{"id":"W2141010693","doi":"10.1093/bioinformatics/btm217","title":"Bayesian association of haplotypes and non-genetic factors to regulatory and phenotypic variation in human populations","year":2007,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genetic Associations and Epidemiology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Wellcome Trust; Microsoft Research","keywords":"Biology; Single-nucleotide polymorphism; Haplotype; Genetics; Genetic variation; Genetic association; Phenotype; Copy-number variation; Tag SNP; Quantitative trait locus; Genotype; Gene; Computational biology; Genome","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":[0.0004919408,0.00008686297,0.0001428343,0.0001122671,0.0000622314,0.000008648316,0.00004620782,0.0001683023,0.000002463627],"category_scores_gemma":[0.0002287571,0.00008743548,0.00002088331,0.0001000155,0.00002012045,0.000006332258,0.00004635873,0.00004198593,7.943155e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003704464,"about_ca_system_score_gemma":0.00002038033,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00008060944,"about_ca_topic_score_gemma":0.0005255676,"domain_scores_codex":[0.9992123,0.00002466863,0.0004143372,0.0001023455,0.00008036316,0.0001660366],"domain_scores_gemma":[0.9995244,0.00003004136,0.0002084951,0.0001191607,0.00005686866,0.00006109969],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.000006873591,0.00001982361,0.9772715,0.00002427734,0.00001810444,6.447527e-8,0.000924424,0.0003013941,0.01985784,0.0001757269,0.0001730913,0.001226865],"study_design_scores_gemma":[0.000224349,0.00009851244,0.9967953,0.000008082754,0.00001320131,5.516717e-7,0.0002100905,0.00106406,0.00106169,0.0002979349,0.0001343429,0.00009191046],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9723061,0.00004660147,0.02707266,0.00005954026,0.00005556052,0.0001621391,0.000009826295,0.000004390942,0.0002831462],"genre_scores_gemma":[0.9797351,0.00001802546,0.02000439,0.00007267966,0.00003233122,0.000002908834,0.0000442265,0.000007088745,0.0000832449],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01952375,"threshold_uncertainty_score":0.3565515,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01139728308580016,"score_gpt":0.2575955666381467,"score_spread":0.2461982835523465,"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."}}