{"id":"W1970431511","doi":"10.1093/nar/gks398","title":"PepSite: prediction of peptide-binding sites from protein surfaces","year":2012,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Protein Structure and Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":212,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Mount Sinai Hospital","funders":"Alexander von Humboldt-Stiftung","keywords":"Biology; Peptide; Computational biology; Plasma protein binding; Binding site; Biochemistry","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":[0.0006806828,0.001367173,0.001618168,0.001444041,0.0003767442,0.001022298,0.001211293,0.001078181,0.005395404],"category_scores_gemma":[0.002029073,0.0007820622,0.00112796,0.001088025,0.0002909886,0.001078672,0.0007507395,0.001014283,0.002627359],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002924287,"about_ca_system_score_gemma":0.0005807204,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007151357,"about_ca_topic_score_gemma":0.000683446,"domain_scores_codex":[0.9997064,0.00006601129,0.00002436237,0.00007817743,0.00009634061,0.00002876272],"domain_scores_gemma":[0.9995796,0.0001900878,0.00004576207,0.00004968127,0.00006195642,0.00007290329],"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":[0.00560336,0.0007151629,0.0252422,0.00362102,0.0004828708,0.003402659,0.0003087669,0.2045043,0.5000607,0.008492251,0.06449033,0.1830764],"study_design_scores_gemma":[0.000437233,0.0002313654,0.01018897,0.00005659161,0.00007121165,0.001657552,0.00007794383,0.8767073,0.09034126,0.0059067,0.01424244,0.00008151557],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.3888303,0.002139289,0.5359902,0.0003438726,0.0001453439,0.0003693136,0.02771734,0.04066253,0.003801852],"genre_scores_gemma":[0.4714016,0.0008696297,0.4763086,0.000101484,0.00005355092,0.0003265649,0.0468757,0.002375247,0.001687686],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.005395404,"threshold_uncertainty_score":0.01804948,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03361658666262007,"score_gpt":0.3127907515569329,"score_spread":0.2791741648943128,"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."}}