{"id":"W4409199085","doi":"10.1016/j.molcel.2025.03.010","title":"A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance","year":2025,"lang":"en","type":"article","venue":"Molecular Cell","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":28,"is_retracted":false,"has_abstract":false,"ca_institutions":"","funders":"National Institute of General Medical Sciences; National Institutes of Health; National Cancer Institute; Hewitt Foundation; Chao Family Comprehensive Cancer Center; Washington Research Foundation","keywords":"Biology; Transcriptome; RNA; Computational biology; Degradation (telecommunications); Cell biology; Code (set theory); Genetics; Gene; Gene expression; Computer science; Set (abstract data type)","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004461448,0.0003984134,0.0004337276,0.0003882267,0.000880043,0.001494726,0.0005190188,0.0007519116,0.003802806],"category_scores_gemma":[0.0006273497,0.0002696966,0.000583204,0.0002427489,0.0007157991,0.0008300652,0.0009299904,0.001033486,0.001654389],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006156781,"about_ca_system_score_gemma":0.0003830003,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003042989,"about_ca_topic_score_gemma":0.0004207031,"domain_scores_codex":[0.9997124,0.00004393244,0.00001669382,0.00008815885,0.00007302711,0.00006575289],"domain_scores_gemma":[0.9995796,0.00009938656,0.00009942742,0.00006075512,0.00005595369,0.000104834],"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":[0.0004403341,0.00001748615,0.001070092,0.00005974706,0.0000090985,0.0004620155,0.00004856282,0.0002428982,0.9830132,0.006696305,0.0003083452,0.007631876],"study_design_scores_gemma":[0.00003222189,0.0001794677,0.002682286,0.00001198867,0.00001159885,0.001210985,0.00008473952,0.005490643,0.9831046,0.002482864,0.004688215,0.00002031697],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9119973,0.004616314,0.0667845,0.001336413,0.0004208482,0.00009025427,0.0004174955,0.001345547,0.01299144],"genre_scores_gemma":[0.9908955,0.0002805913,0.005856587,0.0001356026,0.00004985843,0.00002171746,0.0003226357,0.00009706515,0.002340459],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003802806,"threshold_uncertainty_score":0.01272166,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007555864034406408,"score_gpt":0.2253636847438883,"score_spread":0.2178078207094819,"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."}}