{"id":"W2109048736","doi":"10.1074/mcp.m112.025569","title":"Targeted Identification of SUMOylation Sites in Human Proteins Using Affinity Enrichment and Paralog-specific Reporter Ions","year":2013,"lang":"en","type":"article","venue":"Molecular & Cellular Proteomics","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":48,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"","keywords":"SUMO protein; Electron-transfer dissociation; Chemistry; Peptide; Biochemistry; Tandem mass spectrometry; Fragmentation (computing); HEK 293 cells; Proteomics; Biology; Computational biology; Molecular biology; Mass spectrometry; Ubiquitin; Gene","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":[0.0005007813,0.0005015398,0.0003720171,0.0004414925,0.0003023617,0.0004026865,0.0004511517,0.0004901561,0.001312415],"category_scores_gemma":[0.0003261953,0.0002272881,0.0004495301,0.0004880534,0.0002628574,0.0002701526,0.00040547,0.0006383546,0.001074325],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004299427,"about_ca_system_score_gemma":0.0003354529,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005571579,"about_ca_topic_score_gemma":0.001127002,"domain_scores_codex":[0.9995965,0.00005689546,0.00003606665,0.0001254339,0.0001154605,0.00006956911],"domain_scores_gemma":[0.9997863,0.0000523544,0.0000519776,0.00002830183,0.00004135634,0.0000396994],"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":[0.00007435572,0.00002075935,0.0003055777,0.00003430243,0.000009215527,0.00005487784,0.00001969188,0.00005131775,0.9977871,0.0000777264,0.00005314633,0.001512035],"study_design_scores_gemma":[0.0000124218,0.00009073396,0.003077483,0.000004896758,0.00001657408,0.0004745655,0.00002383524,0.001583863,0.9912544,0.0000757536,0.003378583,0.000006912863],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8813329,0.002201735,0.1111386,0.0003604739,0.0000555045,0.0002515009,0.002132079,0.00062199,0.001905174],"genre_scores_gemma":[0.8682091,0.002728103,0.1170822,0.000409028,0.00002821661,0.000265342,0.006236983,0.0001988901,0.004842203],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001312415,"threshold_uncertainty_score":0.004390419,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01851041186366454,"score_gpt":0.2425747003855962,"score_spread":0.2240642885219317,"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."}}