{"id":"W4392854297","doi":"10.1093/bib/bbae087","title":"MHCpLogics: an interactive machine learning-based tool for unsupervised data visualization and cluster analysis of immunopeptidomes","year":2024,"lang":"en","type":"article","venue":"Briefings in Bioinformatics","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Infection and Immunity","funders":"National Health and Medical Research Council; Monash University; Cure Cancer Australia Foundation; Australian Government","keywords":"Allotype; Computational biology; Human leukocyte antigen; Major histocompatibility complex; ENCODE; Computer science; Biology; Genetics; Gene; Antigen","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":[0.002456416,0.002305571,0.001234788,0.003629501,0.000765437,0.001969855,0.002851624,0.001273123,0.01552001],"category_scores_gemma":[0.004849317,0.0007432831,0.00185634,0.001865567,0.0006415228,0.001492043,0.003149874,0.002420104,0.003700733],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007453553,"about_ca_system_score_gemma":0.001541558,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003392815,"about_ca_topic_score_gemma":0.00542175,"domain_scores_codex":[0.9991353,0.000206496,0.00008067927,0.0002581658,0.0002271033,0.00009228829],"domain_scores_gemma":[0.9979725,0.001265413,0.000171037,0.0002176214,0.0002066898,0.0001666685],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00390168,0.0007458665,0.01454006,0.004929618,0.002146039,0.00269616,0.003705182,0.04129785,0.1008896,0.01777967,0.3542865,0.4530818],"study_design_scores_gemma":[0.0007534609,0.0003130843,0.01485048,0.0005194584,0.0002795635,0.001295873,0.0007229539,0.7063398,0.06882539,0.03599904,0.1696824,0.0004183554],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02533748,0.0008301137,0.5322089,0.0006098171,0.0002880806,0.0004140218,0.04224852,0.3953093,0.002753721],"genre_scores_gemma":[0.11678,0.0007437863,0.8052905,0.0007278526,0.0001378932,0.002478297,0.05030226,0.02057644,0.002963015],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01552001,"threshold_uncertainty_score":0.05191958,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02179513995767297,"score_gpt":0.2944593453421894,"score_spread":0.2726642053845164,"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."}}