{"id":"W2893410333","doi":"10.3389/fimmu.2018.02206","title":"AIRR Community Standardized Representations for Annotated Immune Repertoires","year":2018,"lang":"en","type":"article","venue":"Frontiers in Immunology","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":105,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health; National Institute of General Medical Sciences; Chan Zuckerberg Initiative","keywords":"Metadata; Interoperability; Computer science; Repertoire; Scalability; Computational biology; World Wide Web; Medicine; Database; Biology","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":[0.0003246295,0.000144937,0.0002549952,0.0001026884,0.0002942195,0.00001723868,0.000323291,0.0002279643,0.00001309591],"category_scores_gemma":[0.0002823749,0.0001511148,0.0001063145,0.0001387026,0.0004995576,0.000006149886,0.000080022,0.0001981078,0.000002531177],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003761785,"about_ca_system_score_gemma":0.00008558518,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003720473,"about_ca_topic_score_gemma":0.0002769288,"domain_scores_codex":[0.9988146,0.0002499577,0.0003212726,0.000252465,0.00005441083,0.0003072532],"domain_scores_gemma":[0.9991124,0.00003000581,0.00008220761,0.0005731239,0.0001744738,0.00002782666],"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":[0.002302849,0.0002055892,0.01160229,0.00001560213,0.00024653,0.000001892932,0.0007333804,0.00001504783,0.9604034,0.0001020955,0.01617762,0.008193655],"study_design_scores_gemma":[0.00706732,0.002081235,0.02278448,0.00003751623,0.00004947181,0.00002182586,0.002169442,0.0004211274,0.7728005,0.002481509,0.1895539,0.0005316293],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9200646,0.002051136,0.07383631,0.0002627352,0.002070028,0.0003955739,0.00007848075,0.00003411982,0.001207007],"genre_scores_gemma":[0.980953,0.0002906871,0.01700136,0.0001841216,0.000144076,0.00008022633,0.0004300259,0.00003165516,0.0008848427],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1876029,"threshold_uncertainty_score":0.6162285,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01500440696955839,"score_gpt":0.2655795794694137,"score_spread":0.2505751724998553,"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."}}