{"id":"W4293236051","doi":"10.1101/2022.08.23.504798","title":"Integrated Immunopeptidomics and Proteomics Study Reveals Imbalanced Innate and Adaptive Immune Responses to SARS-Cov-2 Infection","year":2022,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Centre Hospitalier Universitaire Sainte-Justine; National Research Council Canada","funders":"","keywords":"Immune system; Immunoprecipitation; Biology; Innate immune system; Antigen presentation; Human leukocyte antigen; Antigen; Major histocompatibility complex; Immunology; Proteomics; Acquired immune system; Virology; MHC class I; Antigen processing; Antibody; T cell; Gene; Genetics","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":[0.0002086582,0.0004145211,0.0002730128,0.0002903845,0.0001857165,0.0003527046,0.0002019141,0.0004784874,0.0009212575],"category_scores_gemma":[0.0001072584,0.0001584556,0.0002360087,0.0002255169,0.0002084138,0.0003243796,0.0002175038,0.0005773646,0.0003305811],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002508357,"about_ca_system_score_gemma":0.0001348878,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003388539,"about_ca_topic_score_gemma":0.0003627389,"domain_scores_codex":[0.9998717,0.0000144695,0.000008156795,0.00003996323,0.0000382451,0.00002747353],"domain_scores_gemma":[0.9999448,0.00000702843,0.00001402711,0.000006719347,0.00001283283,0.00001453502],"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":[0.00006481394,0.00000745023,0.0001920002,0.00001188829,0.000003172841,0.00003491302,0.000005371735,0.00001846052,0.9993411,0.00002781508,0.00001893216,0.000273982],"study_design_scores_gemma":[0.00001710386,0.0001298315,0.0211673,0.000005852862,0.00002078944,0.0008273324,0.00006228061,0.001979912,0.9736574,0.0001340852,0.001985718,0.00001241474],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.990371,0.001627624,0.005756671,0.0001599499,0.00006028125,0.00002780798,0.0008139703,0.00006209781,0.001120476],"genre_scores_gemma":[0.9809206,0.00115541,0.01201362,0.0002437275,0.00004072055,0.00005979451,0.002015783,0.00005134224,0.003498996],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009212575,"threshold_uncertainty_score":0.003081858,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01922802935660554,"score_gpt":0.2458160048365997,"score_spread":0.2265879754799941,"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."}}