{"id":"W2111743367","doi":"10.1093/hmg/ddu149","title":"Predicting HLA alleles from high-resolution SNP data in three Southeast Asian populations","year":2014,"lang":"en","type":"article","venue":"Human Molecular Genetics","topic":"T-cell and B-cell Immunology","field":"Immunology and Microbiology","cited_by":104,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba","funders":"","keywords":"International HapMap Project; Biology; Human leukocyte antigen; Imputation (statistics); Genetics; Single-nucleotide polymorphism; Population; Linkage disequilibrium; 1000 Genomes Project; Major histocompatibility complex; Genotyping; Allele; Evolutionary biology; Genotype; Gene; Demography","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001056862,0.00034817,0.0003541452,0.0006638726,0.0003399925,0.0004132137,0.0003946492,0.0002180122,0.0007360964],"category_scores_gemma":[0.001898219,0.0001469428,0.000398401,0.00107057,0.0001487083,0.0001399754,0.0007266977,0.0002290354,0.0002642187],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001963743,"about_ca_system_score_gemma":0.0003707549,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01155699,"about_ca_topic_score_gemma":0.02008325,"domain_scores_codex":[0.9997112,0.00009871542,0.00004843396,0.00007785,0.00003995807,0.0000238787],"domain_scores_gemma":[0.9992035,0.0002922458,0.0001102018,0.0001799386,0.0001297536,0.00008449291],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0006409428,0.0001459139,0.9127397,0.00007242212,0.00034047,0.0006675869,0.001497101,0.004392584,0.03000399,0.0001999711,0.0006870714,0.04861221],"study_design_scores_gemma":[0.0001129678,0.0001855124,0.9714692,0.00002199356,0.0003250758,0.0004834944,0.00106114,0.01847976,0.005547582,0.0004832487,0.001803059,0.00002698156],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9973641,0.00003044954,0.001661185,0.00001101758,7.168761e-7,0.00001050915,0.000731364,0.00001823889,0.0001723921],"genre_scores_gemma":[0.9839023,0.00008187229,0.008693686,0.00002207894,0.000003197025,0.00004588355,0.006997888,0.00001145552,0.0002416936],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01155699,"threshold_uncertainty_score":0.02297944,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03635398457746564,"score_gpt":0.2570887072072006,"score_spread":0.2207347226297349,"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."}}