{"id":"W2170283197","doi":"10.1093/database/bat026","title":"The PhosphoGRID Saccharomyces cerevisiae protein phosphorylation site database: version 2.0 update","year":2013,"lang":"en","type":"article","venue":"Database","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":108,"is_retracted":false,"has_abstract":true,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; Université de Montréal; Institute for Research in Immunology and Cancer; University of British Columbia","funders":"Biotechnology and Biological Sciences Research Council; Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; National Center for Research Resources; Directorate for Biological Sciences; National Institutes of Health; Wellcome Trust","keywords":"Phosphorylation; Proteome; Saccharomyces cerevisiae; Computational biology; Protein phosphorylation; Protein function; Database; Function (biology); Biology; Yeast; Bioinformatics; Computer science; Biochemistry; Protein kinase A; Cell biology; Gene","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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0003375718,0.0001830062,0.000101873,0.00003101078,0.0003487591,0.0001451095,0.0004258184,0.00007656239,0.0005414903],"category_scores_gemma":[0.0001282727,0.0001303974,0.00006422082,0.0001491415,0.0001131458,0.00002490182,0.0005420178,0.0001698753,0.001444393],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001459276,"about_ca_system_score_gemma":0.00007078159,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002398471,"about_ca_topic_score_gemma":0.00005926962,"domain_scores_codex":[0.9985185,0.00009468122,0.0002094597,0.0004441995,0.000331191,0.0004020151],"domain_scores_gemma":[0.9986683,0.00002209999,0.00007590587,0.0009121492,0.0001585793,0.00016297],"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":[0.0001023587,0.00004094385,0.0007561758,0.00002722392,0.00002386094,0.000002907938,0.000007342405,0.000005363576,0.9049791,0.00008234546,0.08587816,0.008094228],"study_design_scores_gemma":[0.0003612568,0.00009056717,0.0008763454,0.00002595372,0.000007700457,0.000003773312,0.00003591394,0.0003513746,0.5870636,0.00002180039,0.4109929,0.0001687975],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9902554,0.005275484,0.0004623186,0.001089809,0.0001744118,0.0008586978,0.001307642,0.00002390822,0.0005522883],"genre_scores_gemma":[0.9780493,0.003306373,0.001863762,0.0003258501,0.0004042239,0.0002388534,0.01273244,0.0000464594,0.003032745],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3251147,"threshold_uncertainty_score":0.9993331,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007943784022554383,"score_gpt":0.2427444477371843,"score_spread":0.23480066371463,"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."}}