{"id":"W2131947487","doi":"10.1098/rstb.2012.0078","title":"Protein abundance is key to distinguish promiscuous from functional phosphorylation based on evolutionary information","year":2012,"lang":"en","type":"article","venue":"Philosophical Transactions of the Royal Society B Biological Sciences","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":98,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval; Université de Montréal","funders":"Canadian Institutes of Health Research","keywords":"Phosphorylation; Biology; Protein phosphorylation; Evolutionary biology; Function (biology); Protein function; Conserved sequence; Abundance (ecology); Saccharomyces cerevisiae; Posttranslational modification; Computational biology; Genetics; Ecology; Biochemistry; Gene; Protein kinase A; Peptide sequence; Enzyme","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":[0.0001983317,0.0001508485,0.0001399993,0.00001440796,0.0007183173,0.00002450645,0.0003729132,0.0001802282,0.0006285814],"category_scores_gemma":[0.0001012158,0.0000957755,0.0002542971,0.0003370984,0.0004723204,0.0001577645,0.00003088678,0.0002936158,0.00002031736],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001116166,"about_ca_system_score_gemma":0.0000439598,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006856232,"about_ca_topic_score_gemma":3.379579e-7,"domain_scores_codex":[0.9987824,0.00002549408,0.0003019528,0.0002452262,0.0003878266,0.0002571161],"domain_scores_gemma":[0.9992765,0.0001375245,0.0001520578,0.000233273,0.0000831411,0.0001174842],"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":[0.00255336,0.01148446,0.1562596,0.0005495666,0.000502512,4.772731e-7,0.004644666,0.3039007,0.2459933,0.1922654,0.007596023,0.07424989],"study_design_scores_gemma":[0.001462299,0.0008344693,0.0616038,0.0004897704,0.000117573,0.000002550734,0.0003697956,0.2003666,0.3628437,0.3429607,0.02726089,0.001687929],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.511869,0.0000844981,0.4562362,0.02338331,0.0001601921,0.000968837,0.0007311981,0.0002776874,0.006289108],"genre_scores_gemma":[0.9595371,0.000003606782,0.03923238,0.0006975734,0.0001650267,0.0002820596,0.00002425545,0.000004540741,0.00005345012],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4476681,"threshold_uncertainty_score":0.6882525,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0334075626095113,"score_gpt":0.2606116993403046,"score_spread":0.2272041367307933,"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."}}