{"id":"W4321376551","doi":"10.1016/j.immuno.2023.100025","title":"AIRR community curation and standardised representation for immunoglobulin and T cell receptor germline sets","year":2023,"lang":"en","type":"article","venue":"ImmunoInformatics","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"National Institutes of Health; Vetenskapsrådet; National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; European Commission","keywords":"Germline; Interoperability; Computational biology; Biology; Data curation; Computer science; Genetics; Gene; Data science; World Wide Web","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":[0.0003665289,0.0001243989,0.0001361467,0.00004478362,0.0002884396,0.00007392526,0.00009349523,0.0001121546,0.000003308695],"category_scores_gemma":[0.00009256033,0.0001233624,0.00004639307,0.0000889697,0.00007079499,0.00002885069,0.00007548076,0.0001071766,0.000005632637],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001160103,"about_ca_system_score_gemma":0.00003120909,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003206874,"about_ca_topic_score_gemma":0.00001047082,"domain_scores_codex":[0.9992857,0.00004991564,0.0003134538,0.00009494686,0.00009045791,0.0001655002],"domain_scores_gemma":[0.9994398,0.00005267062,0.0001038627,0.0002601651,0.00010101,0.00004253951],"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":[0.0005656509,0.00007660646,0.0012236,0.0004584887,0.00007920133,3.400464e-7,0.003889326,0.000244165,0.9625587,0.00006439794,0.005058506,0.02578095],"study_design_scores_gemma":[0.01158512,0.00210284,0.01588422,0.0001493052,0.000162971,0.00003050467,0.008936772,0.04451168,0.8395932,0.001180521,0.07460812,0.001254734],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9919288,0.0003240725,0.006559197,0.0001027926,0.0001785061,0.0003747744,0.0001708076,0.00003771628,0.0003232874],"genre_scores_gemma":[0.9925528,0.001159509,0.003814778,0.00011284,0.00004406942,0.00002861619,0.001999345,0.00001964066,0.0002683809],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1229656,"threshold_uncertainty_score":0.5030572,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02295008972932137,"score_gpt":0.2801263588768214,"score_spread":0.2571762691475,"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."}}