{"id":"W4385442608","doi":"10.1021/acs.jproteome.3c00159","title":"Determination of Protein Monoclonal–Antibody Epitopes by a Combination of Structural Proteomics Methods","year":2023,"lang":"en","type":"article","venue":"Journal of Proteome Research","topic":"Monoclonal and Polyclonal Antibodies Research","field":"Medicine","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; Jewish General Hospital","funders":"Terry Fox Research Institute; Fondation De Famille Alvin Segal; Genome Canada; Warren Y. Soper Charitable Trust; McGill University","keywords":"Epitope; Monoclonal antibody; Proteomics; Epitope mapping; Antigen; Computational biology; Protein–protein interaction; Chemistry; Protein structure; Antibody; Biology; Biochemistry; Immunology","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.007739572,0.0001745029,0.0007173673,0.001397575,0.000134074,0.00003002687,0.0004268947,0.0001735252,0.0001182981],"category_scores_gemma":[0.002176776,0.0001282582,0.0002697907,0.001632235,0.0004514595,0.0002608227,0.0002152825,0.001042114,0.00001257047],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001349928,"about_ca_system_score_gemma":0.0006161939,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001400331,"about_ca_topic_score_gemma":0.000001767721,"domain_scores_codex":[0.994776,0.0009900871,0.001162161,0.0002230433,0.002325325,0.0005233916],"domain_scores_gemma":[0.9952825,0.000542225,0.0006459834,0.0002634019,0.003021681,0.0002442355],"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":[0.001534737,0.0002046028,0.003773861,0.001375144,0.0001024432,0.00006078694,0.0003337706,0.000003138703,0.9617311,0.0005253293,0.0003413386,0.03001371],"study_design_scores_gemma":[0.001909186,0.003971731,0.02464424,0.000833201,0.00003089914,0.0001787805,0.0002699149,0.005194463,0.9537058,0.007971112,0.001153211,0.0001374212],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9913501,0.0006682742,0.002628305,0.002860819,0.00007181594,0.002069843,0.00003483537,0.00001261017,0.0003033621],"genre_scores_gemma":[0.8824246,0.0003963397,0.1132432,0.0000095198,0.0002273057,0.00009448102,0.00004732482,0.00004605374,0.003511192],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1106149,"threshold_uncertainty_score":0.5230219,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09749528811829362,"score_gpt":0.5105214867670308,"score_spread":0.4130261986487372,"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."}}