{"id":"W3002025258","doi":"10.7554/elife.52611","title":"Stop codon context influences genome-wide stimulation of termination codon readthrough by aminoglycosides","year":2020,"lang":"en","type":"article","venue":"eLife","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":228,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"National Institute of General Medical Sciences; Johns Hopkins University; National Institutes of Health; Cystic Fibrosis Foundation","keywords":"Stop codon; Ribosome; Ribosome profiling; Biology; Genetics; Start codon; Gene; Translation (biology); Codon usage bias; Protein biosynthesis; Genome; Messenger RNA; Computational biology; RNA","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001388279,0.0001214088,0.0001597692,0.00001800821,0.00005035394,0.00001558781,0.0001462825,0.0001245367,0.00003740689],"category_scores_gemma":[0.000282014,0.0001178139,0.00005566153,0.00006407047,0.00005390162,0.000009450092,0.00004525374,0.00004202688,0.00001588783],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008267715,"about_ca_system_score_gemma":0.00003141505,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003652001,"about_ca_topic_score_gemma":0.000007474082,"domain_scores_codex":[0.9990996,0.00007656618,0.0002581499,0.0002491294,0.0001890007,0.0001275742],"domain_scores_gemma":[0.9994611,0.00003223353,0.0001708737,0.0001625066,0.0001066723,0.00006665422],"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":[0.00008953873,0.00002131232,0.003996104,0.00002774001,0.00002187713,8.11895e-7,0.0002089735,0.00007275079,0.9879746,0.00004236436,0.001248077,0.006295871],"study_design_scores_gemma":[0.0002961446,0.000382733,0.006078344,0.00001659433,0.00001496305,8.533609e-7,0.0001382864,0.00008819615,0.9589415,0.00003335465,0.03387464,0.000134417],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9908236,0.001369717,0.006678195,0.0004419945,0.00005507729,0.0002392583,0.00004426347,0.00001611956,0.000331756],"genre_scores_gemma":[0.9974268,0.0002352811,0.0006133824,0.001248546,0.000111606,0.00001655825,0.0001688115,0.00001539802,0.000163584],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03262656,"threshold_uncertainty_score":0.4804313,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01851998534970955,"score_gpt":0.2489829082586437,"score_spread":0.2304629229089342,"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."}}