{"id":"W2156862640","doi":"10.1186/1741-7007-9-53","title":"Identification of specificity determining residues in peptide recognition domains using an information theoretic approach applied to large-scale binding maps","year":2011,"lang":"en","type":"article","venue":"BMC Biology","topic":"Protein Structure and Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":16,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Institute on Drug Abuse; National Institutes of Health; Yale University","keywords":"Biology; Computational biology; Binding site; Mutagenesis; Peptide; Genetics; Biochemistry; Gene; Mutation","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":[0.001161633,0.0007657712,0.0008432431,0.002691081,0.0006976543,0.0007785941,0.001156574,0.001026566,0.0009967003],"category_scores_gemma":[0.004077805,0.0004550204,0.001217628,0.0009429083,0.0008993813,0.0008573703,0.001084079,0.0007193513,0.000230405],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001035566,"about_ca_system_score_gemma":0.001047207,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002200738,"about_ca_topic_score_gemma":0.001573208,"domain_scores_codex":[0.9996415,0.0001050107,0.00002225763,0.00007923508,0.0001185777,0.00003329395],"domain_scores_gemma":[0.9977511,0.001591395,0.0002237352,0.0001178267,0.0002063868,0.0001096136],"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":[0.000141587,0.0001544326,0.005932247,0.00009951632,0.0001046317,0.000221513,0.0001181372,0.8972308,0.01647991,0.009993969,0.0004973401,0.0690259],"study_design_scores_gemma":[0.000003650577,0.00001328217,0.0002660684,0.00000213235,0.000006171902,0.00002136347,0.000006719717,0.9950863,0.0009866632,0.003541851,0.00006022065,0.000005572456],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.132164,0.0001254606,0.8658722,0.00009661049,0.000007791466,0.00008988973,0.00009354865,0.000682414,0.0008680469],"genre_scores_gemma":[0.6126237,0.00009419185,0.3861608,0.00007810075,0.00001990518,0.0002002772,0.0002981802,0.00009738129,0.0004275544],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.002691081,"threshold_uncertainty_score":0.007513642,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02879502542079414,"score_gpt":0.2566996078272651,"score_spread":0.2279045824064709,"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."}}