{"id":"W4283451895","doi":"10.3390/v14061152","title":"CAVES: A Novel Tool for Comparative Analysis of Variant Epitope Sequences","year":2022,"lang":"en","type":"article","venue":"Viruses","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba; Public Health Agency of Canada","funders":"","keywords":"Epitope; Computer science; Computational biology; Cave; In silico; Source code; Biology; Data mining; Antigen; Genetics; Ecology; Programming language; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001606529,0.00008114137,0.0002009267,0.00007753605,0.0001084545,0.00001289946,0.0001733799,0.00002481067,0.00004560499],"category_scores_gemma":[0.00002497339,0.0000707489,0.000133552,0.000236221,0.00002637207,0.000004796953,0.0001179461,0.00003244121,5.420876e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008023557,"about_ca_system_score_gemma":0.0000513392,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007226468,"about_ca_topic_score_gemma":0.00001568568,"domain_scores_codex":[0.9994343,0.00001879722,0.0002267468,0.0001287154,0.00008267359,0.0001087701],"domain_scores_gemma":[0.9995778,0.00002313577,0.000133855,0.0002015083,0.00004851733,0.00001518715],"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":[0.0001587781,0.0001832709,0.001634813,0.00002912759,0.001876527,3.046154e-7,0.0008467198,0.01287981,0.9779544,0.002744676,0.001256951,0.0004346484],"study_design_scores_gemma":[0.001852356,0.00158333,0.008020434,0.000009086413,0.001422185,0.0000167088,0.006782793,0.03154954,0.7232222,0.0001559217,0.2247275,0.000658008],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9916208,0.0005843475,0.006561441,0.00002959209,0.0000620749,0.0002100478,0.0006355671,0.000004594164,0.0002915026],"genre_scores_gemma":[0.9965521,0.00003920676,0.002719131,0.0002420026,0.0000261267,0.00009696245,0.0002354745,0.000004621373,0.00008441554],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2547322,"threshold_uncertainty_score":0.2885056,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05534817480204814,"score_gpt":0.3025779691161971,"score_spread":0.247229794314149,"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."}}