{"id":"W4360813826","doi":"10.1158/2326-6066.cir-22-0621","title":"The Immunopeptidome from a Genomic Perspective: Establishing the Noncanonical Landscape of MHC Class I–Associated Peptides","year":2023,"lang":"en","type":"article","venue":"Cancer Immunology Research","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Victoria","funders":"Genome British Columbia; Infrastruktura PL-Grid; Imperial Experimental Cancer Medicine Centre; Cancerfonden; Agence Nationale de la Recherche; European Regional Development Fund; Fundacja na rzecz Nauki Polskiej; European Commission; UK Research and Innovation; Horizon 2020 Framework Programme; Cancer Research UK; NuCana; Medical Research Council; Swedish Cancer Foundation; Fundação para a Ciência e a Tecnologia; Genome Canada","keywords":"MHC class I; Computational biology; Biology; Major histocompatibility complex; Human leukocyte antigen; Genome; Cancer immunotherapy; Antigen; Cancer; Genetics; Immunotherapy; Gene","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001149615,0.0005950452,0.0005188509,0.0009110945,0.0002985664,0.001319216,0.0004499953,0.0005007655,0.001981048],"category_scores_gemma":[0.001977597,0.0003240133,0.000555536,0.0007924935,0.0004716275,0.001168666,0.0009078316,0.001095614,0.0006127753],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004365617,"about_ca_system_score_gemma":0.0005133494,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000602821,"about_ca_topic_score_gemma":0.001121224,"domain_scores_codex":[0.9996794,0.00004669646,0.00001814713,0.0001240822,0.00008886525,0.00004283155],"domain_scores_gemma":[0.9993198,0.0002662094,0.0001673775,0.00009049616,0.00009393049,0.00006229837],"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":[0.0007925488,0.00007962394,0.02008553,0.0008481933,0.000261932,0.000567858,0.0002395266,0.007226359,0.8675636,0.004444846,0.003019817,0.09487014],"study_design_scores_gemma":[0.0001295522,0.0006724307,0.08098841,0.0001755342,0.0004111596,0.003897161,0.0003209133,0.1510552,0.6854041,0.02620119,0.05060302,0.0001413173],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7125849,0.006088832,0.2611526,0.001104698,0.0002025973,0.0001568944,0.008158715,0.002877681,0.007673102],"genre_scores_gemma":[0.792077,0.002661885,0.1950149,0.0007289136,0.00008833003,0.0001571363,0.006752491,0.0006362565,0.001883053],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001981048,"threshold_uncertainty_score":0.006627262,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04476982043104263,"score_gpt":0.3452545629866257,"score_spread":0.300484742555583,"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."}}