{"id":"W2599616891","doi":"10.1371/journal.pcbi.1005462","title":"Systematic identification of phosphorylation-mediated protein interaction switches","year":2017,"lang":"en","type":"article","venue":"PLoS Computational Biology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":58,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Canadian Institute for Advanced Research; Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital","funders":"National Human Genome Research Institute; National Institutes of Health; Krembil Foundation; Canada Excellence Research Chairs, Government of Canada; Deutsche Forschungsgemeinschaft; Avon Foundation for Women; Business Events Perth","keywords":"Phosphorylation; Protein phosphorylation; Biology; Protein function; Proteomics; Phosphorylation cascade; Proteome; Computational biology; Function (biology); Mechanism (biology); Identification (biology); Cell biology; Bioinformatics; Protein kinase A; Genetics; Gene; Physics; Ecology","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":[0.0002015562,0.00009080782,0.0001629752,0.00003933187,0.0001410272,0.00003291798,0.0002174102,0.0001175708,0.000009386034],"category_scores_gemma":[0.0002887114,0.00008252718,0.00005557635,0.00002286458,0.00009638122,0.000009410777,0.00007280449,0.00005414413,0.00002906458],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001151239,"about_ca_system_score_gemma":0.00004342759,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000008001512,"about_ca_topic_score_gemma":0.000003929616,"domain_scores_codex":[0.9991841,0.00003651373,0.0004542928,0.0001556446,0.00007117206,0.00009824101],"domain_scores_gemma":[0.9987856,0.00003695354,0.0006796349,0.0002867127,0.0001823918,0.0000287498],"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":[0.0001064829,0.0001484219,0.003266223,0.001513745,0.0003812917,3.664242e-7,0.0001373915,0.003112686,0.9831131,0.007245807,0.0001599286,0.000814622],"study_design_scores_gemma":[0.003360686,0.001152482,0.05853897,0.002208435,0.0002631173,0.0000545644,0.0005074954,0.4033441,0.4482008,0.08037062,0.0006466775,0.001352083],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9535916,0.0001975293,0.04474995,0.0001885075,0.0001915854,0.0005373259,0.0000428405,0.00001153509,0.0004891605],"genre_scores_gemma":[0.9982339,0.000008557924,0.0009641335,0.00003847873,0.00007651252,0.00004603585,0.0005352488,0.00000793943,0.00008919466],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5349122,"threshold_uncertainty_score":0.3365361,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01314523119564317,"score_gpt":0.2556327087567469,"score_spread":0.2424874775611037,"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."}}