{"id":"W2140996283","doi":"10.1371/journal.pbio.1000218","title":"Bayesian Modeling of the Yeast SH3 Domain Interactome Predicts Spatiotemporal Dynamics of Endocytosis Proteins","year":2009,"lang":"en","type":"article","venue":"PLoS Biology","topic":"Protein Structure and Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":200,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; Canadian Institutes of Health Research; Associazione Italiana per la Ricerca sul Cancro; Deutsche Forschungsgemeinschaft; National Science Foundation; National Institutes of Health; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung","keywords":"Interactome; Biology; Endocytosis; SH3 domain; Yeast; Computational biology; Domain (mathematical analysis); Protein–protein interaction; Genetics; Gene; Signal transduction; Proto-oncogene tyrosine-protein kinase Src","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":[0.00008095764,0.0001427284,0.000224435,0.00004406936,0.00003533336,0.000003759674,0.0003327782,0.0002186378,0.000006780227],"category_scores_gemma":[0.0000778247,0.0001025952,0.000116247,0.00009214725,0.0001168315,0.000003636389,0.0001188175,0.0001189261,4.018964e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001817939,"about_ca_system_score_gemma":0.00007135111,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003982457,"about_ca_topic_score_gemma":0.0001076392,"domain_scores_codex":[0.9990817,0.00008327072,0.0003178437,0.0002409499,0.0000828335,0.0001933988],"domain_scores_gemma":[0.9992592,0.000006018793,0.0001931352,0.0004145049,0.00008832999,0.00003879646],"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":[0.0001674179,0.0001148403,0.006821014,0.00003642648,0.00008749373,7.05363e-7,0.00009021031,0.0004690659,0.9860917,0.002292628,0.00001112189,0.003817336],"study_design_scores_gemma":[0.001335783,0.001870777,0.003141602,0.0001340089,0.00007771051,0.000032431,0.0001103587,0.1240516,0.8325983,0.0359671,0.0002388416,0.0004415449],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9570974,0.0001447719,0.04116201,0.0002900021,0.00008115167,0.0003664927,0.0001570046,0.000008950188,0.0006922386],"genre_scores_gemma":[0.9966646,0.00002753342,0.002905578,0.0001115449,0.00008732171,0.00001149754,0.0001620238,0.00001105208,0.00001878374],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1534935,"threshold_uncertainty_score":0.4183711,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00780076212106825,"score_gpt":0.2289696079209735,"score_spread":0.2211688457999053,"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."}}