{"id":"W4287836515","doi":"10.1101/2022.07.25.501373","title":"Measures of epitope binding degeneracy from T cell receptor repertoires","year":2022,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"T-cell and B-cell Immunology","field":"Immunology and Microbiology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Infection and Immunity","funders":"École Normale Supérieure; National Science Foundation","keywords":"Epitope; Biology; Degeneracy (biology); Receptor; Computational biology; Sequence (biology); Genetics; 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":[0.002012655,0.0003415839,0.000923606,0.002417288,0.000380873,0.000663384,0.0005401254,0.0007015557,0.001566921],"category_scores_gemma":[0.007010826,0.0003684191,0.0002941147,0.001166287,0.001181822,0.001450856,0.001475997,0.000746237,0.000284776],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003464017,"about_ca_system_score_gemma":0.000140228,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001002728,"about_ca_topic_score_gemma":0.0001019165,"domain_scores_codex":[0.9983934,0.0003741556,0.0001558019,0.0003921387,0.0005702538,0.0001143607],"domain_scores_gemma":[0.9944236,0.00285048,0.001317062,0.0008099936,0.0002242372,0.0003746581],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00147305,0.000173062,0.08615196,0.0002884311,0.0002513007,0.0003892261,0.0003273742,0.01370538,0.8657426,0.005601516,0.0001910102,0.02570513],"study_design_scores_gemma":[0.00006102773,0.0010502,0.3851391,0.00007151139,0.0001920014,0.004235391,0.000461841,0.2032724,0.3636883,0.0402642,0.001409777,0.0001542224],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9673474,0.0003529321,0.03103198,0.0000243817,0.000007916598,0.00001350634,0.0002174523,0.0001001827,0.0009041608],"genre_scores_gemma":[0.9941227,0.00008168309,0.005122375,0.00001894719,0.00001007017,0.00002304806,0.0003988813,0.00002593051,0.0001964645],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002417288,"threshold_uncertainty_score":0.01064408,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01879725691770143,"score_gpt":0.2087667398796012,"score_spread":0.1899694829618998,"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."}}