{"id":"W4386332801","doi":"10.1038/s41589-023-01392-5","title":"Activity-based profiling of cullin–RING E3 networks by conformation-specific probes","year":2023,"lang":"en","type":"article","venue":"Nature Chemical Biology","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":28,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo","funders":"National Institute of Allergy and Infectious Diseases; National Institute of General Medical Sciences; National Cancer Institute; Leibniz-Gemeinschaft; Canadian Institutes of Health Research; Horizon 2020 Framework Programme; University of California, San Francisco; Max-Planck-Institut für Bildungsforschung; European Commission; National Institutes of Health; U.S. Department of Health and Human Services; Deutsche Forschungsgemeinschaft; Government of Canada; Max-Planck-Gesellschaft; St. Jude Children's Research Hospital","keywords":"Cullin; Profiling (computer programming); Computational biology; Chemistry; Computer science; Biology; Biochemistry; Ubiquitin ligase; Ubiquitin","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001810814,0.0002564897,0.0001238495,0.0003470153,0.0001287793,0.0003442033,0.0002298665,0.0002651132,0.001011021],"category_scores_gemma":[0.0002168823,0.0001740094,0.0001620977,0.000251512,0.0001818081,0.0002991343,0.000184222,0.0004535286,0.0001971316],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003636554,"about_ca_system_score_gemma":0.0001104843,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002747243,"about_ca_topic_score_gemma":0.0005772485,"domain_scores_codex":[0.9998766,0.00001907129,0.000005913423,0.00004637501,0.00002279596,0.00002920727],"domain_scores_gemma":[0.999869,0.00004488575,0.0000320006,0.00001456134,0.0000173377,0.0000223103],"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":[0.00003489423,0.000009013589,0.0002301528,0.00001611081,0.000003206723,0.000008649473,0.00001089189,0.0001966496,0.9978815,0.0001714119,0.00002198242,0.001415585],"study_design_scores_gemma":[0.00000353317,0.00005929275,0.00251765,0.000002050937,0.000006506115,0.00004377301,0.00001551156,0.003132458,0.9933827,0.0001051249,0.0007277292,0.00000358013],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9373691,0.0008437737,0.05802848,0.00008693686,0.00001470373,0.00004394198,0.0005957333,0.0001696462,0.00284762],"genre_scores_gemma":[0.974161,0.0007602681,0.02247268,0.00007792565,0.000009314537,0.0000705843,0.0004484767,0.00003491731,0.00196474],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001011021,"threshold_uncertainty_score":0.003382206,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01065729800700845,"score_gpt":0.2598223578480817,"score_spread":0.2491650598410733,"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."}}