{"id":"W2109339916","doi":"10.1016/j.jmb.2011.10.003","title":"Computational Design of High-Affinity Epitope Scaffolds by Backbone Grafting of a Linear Epitope","year":2011,"lang":"en","type":"article","venue":"Journal of Molecular Biology","topic":"Monoclonal and Polyclonal Antibodies Research","field":"Medicine","cited_by":103,"is_retracted":false,"has_abstract":false,"ca_institutions":"Princess Margaret Cancer Centre; Ontario Institute for Cancer Research; University of Toronto","funders":"National Research Council Canada; Western Economic Diversification Canada; Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Canada Research Chairs; University of Saskatchewan; Canadian Light Source; International AIDS Vaccine Initiative","keywords":"Epitope; Scaffold; Side chain; Grafting; Chemistry; Linear epitope; Computational biology; Biology; Antigen; Computer science; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003066155,0.0005267286,0.0007257381,0.0004223019,0.0003854829,0.0006146392,0.0008755616,0.0007915915,0.003372074],"category_scores_gemma":[0.0005775113,0.0004262408,0.0004473274,0.0002727495,0.0003344007,0.0004203361,0.0004210558,0.0005157047,0.0002878472],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006001559,"about_ca_system_score_gemma":0.001036203,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002217328,"about_ca_topic_score_gemma":0.002876866,"domain_scores_codex":[0.9999279,0.00001710619,0.00000200926,0.00001357272,0.00001622825,0.0000231434],"domain_scores_gemma":[0.9998122,0.0001124199,0.00001740577,0.00001113322,0.00002664596,0.00002019282],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.000138561,0.00009580073,0.000603655,0.00006285025,0.00002013792,0.0001040395,0.0000205886,0.9795594,0.004873076,0.003414449,0.0003312141,0.01077609],"study_design_scores_gemma":[0.00003277502,0.00006913189,0.00005192599,0.000002650521,0.000008827204,0.000007708164,0.00001253641,0.9978101,0.00124875,0.0005599441,0.0001931024,0.000002698131],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8131452,0.0004684917,0.1696079,0.0002985164,0.0000708761,0.0001345265,0.0001967041,0.0006268633,0.01545094],"genre_scores_gemma":[0.9516172,0.0001470585,0.04667776,0.00006922342,0.00000918492,0.0001291791,0.0001419009,0.00004900588,0.001159641],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003372074,"threshold_uncertainty_score":0.01128072,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04512373220690105,"score_gpt":0.3245926485985136,"score_spread":0.2794689163916125,"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."}}