{"id":"W1775279835","doi":"10.1038/ng.3379","title":"Widespread non-additive and interaction effects within HLA loci modulate the risk of autoimmune diseases","year":2015,"lang":"en","type":"article","venue":"Nature Genetics","topic":"Immune Cell Function and Interaction","field":"Immunology and Microbiology","cited_by":205,"is_retracted":false,"has_abstract":false,"ca_institutions":"Memorial University of Newfoundland; Toronto Western Hospital; University of Toronto","funders":"National Institute of Arthritis and Musculoskeletal and Skin Diseases; National Institute of General Medical Sciences; National Institutes of Health; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; Alfried Krupp von Bohlen und Halbach-Stiftung; Deutsche Forschungsgemeinschaft; National Institute of Allergy and Infectious Diseases; European Commission; Instituto de Salud Carlos III; National Institute for Health and Care Research","keywords":"Rheumatoid arthritis; Autoimmune disease; Allele; Immunology; Psoriasis; Disease; Human leukocyte antigen; Type 1 diabetes; Autoimmunity; Biology; Dominance (genetics); Diabetes mellitus; Genetics; Medicine; Internal medicine; Antigen; Antibody; Gene; Endocrinology","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":[0.0001709109,0.0001506827,0.0001914576,0.00006725187,0.000117814,0.00001620419,0.0001135581,0.0003289869,0.00005488147],"category_scores_gemma":[0.000386101,0.0001028781,0.00006895782,0.00009970751,0.0001657796,0.00007934165,0.00007398163,0.0007579389,0.00006594248],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003601088,"about_ca_system_score_gemma":0.00003905147,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005767322,"about_ca_topic_score_gemma":0.00000994408,"domain_scores_codex":[0.9991587,0.000238772,0.0002217426,0.0001902203,0.00004901933,0.0001414999],"domain_scores_gemma":[0.9990348,0.0002441894,0.0002516355,0.0002591285,0.0001885854,0.00002164529],"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":[0.003817511,0.00067512,0.03127543,0.0001548213,0.002311012,0.00001047149,0.01049254,0.001832031,0.689234,0.0003385743,0.1572345,0.1026239],"study_design_scores_gemma":[0.002814704,0.001118338,0.2216016,0.0001373286,0.0005708213,0.00009747372,0.001638921,0.001962137,0.6784785,0.0005600128,0.09068079,0.000339369],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9775457,0.01416556,0.0002319506,0.0001004521,0.007117894,0.0002675556,0.00002061978,0.00003424918,0.0005159711],"genre_scores_gemma":[0.9972528,0.0005105796,0.00006211312,0.0001762324,0.00005484709,0.00001187798,0.0001186717,0.00001459648,0.001798287],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1903262,"threshold_uncertainty_score":0.4195249,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005562865132505694,"score_gpt":0.2352174815069837,"score_spread":0.229654616374478,"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."}}