{"id":"W4281736544","doi":"10.4049/jimmunol.2100717","title":"Characterization of Proteasome-Generated Spliced Peptides Detected by Mass Spectrometry","year":2022,"lang":"en","type":"article","venue":"The Journal of Immunology","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre; University of Toronto; University Health Network","funders":"Japan Society for the Promotion of Science; Ministry of Education, Culture, Sports, Science and Technology; Japan Agency for Medical Research and Development; Takeda Science Foundation","keywords":"Minigene; RNA splicing; Human leukocyte antigen; Alternative splicing; Proteasome; Biology; Computational biology; Antigen processing; Antigenicity; Peptide; CD8; Molecular biology; Chemistry; Genetics; Biochemistry; Antigen; Gene; MHC class I; Messenger RNA","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":[0.0002174497,0.000458712,0.0002275943,0.0005127427,0.000198732,0.000310337,0.0001769554,0.0003299932,0.00115793],"category_scores_gemma":[0.0004157955,0.000119432,0.0002942219,0.0003409843,0.0001736554,0.0001769561,0.0001487423,0.0004542172,0.0007066776],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001602195,"about_ca_system_score_gemma":0.0001636472,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002219471,"about_ca_topic_score_gemma":0.0002241362,"domain_scores_codex":[0.9998395,0.00001852062,0.0000131389,0.00004429497,0.00006201161,0.00002256651],"domain_scores_gemma":[0.9997192,0.00006482524,0.0000814653,0.00002213611,0.00006261931,0.00004973619],"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":[0.00005596656,0.00001606346,0.0006573786,0.00002403364,0.000006192656,0.0001604871,0.00001940775,0.00004831585,0.9977482,0.00003846437,0.00001999226,0.001205491],"study_design_scores_gemma":[0.00001264797,0.0002548856,0.01210699,0.0000116145,0.00002444248,0.001382196,0.00006502819,0.00223436,0.9820887,0.0001318149,0.001678089,0.000009256161],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9777696,0.001261636,0.01817822,0.0000696127,0.00005671889,0.00007403827,0.001081673,0.0001041148,0.001404322],"genre_scores_gemma":[0.9675205,0.0009180725,0.02765856,0.0001574402,0.00003921338,0.00007502989,0.001817824,0.00007513973,0.001738149],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00115793,"threshold_uncertainty_score":0.003873706,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007063977529069372,"score_gpt":0.2002777321120184,"score_spread":0.193213754582949,"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."}}