{"id":"W2768144926","doi":"10.1101/gr.226050.117","title":"Discovery of noncanonical translation initiation sites through mass spectrometric analysis of protein N termini","year":2017,"lang":"en","type":"article","venue":"Genome Research","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":101,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Edgewood Chemical Biological Center; National Cancer Institute; National Institutes of Health; Fonds Wetenschappelijk Onderzoek; National Institute on Aging; National Research Foundation; Johns Hopkins University; Vlaamse regering; National Research Foundation of Korea","keywords":"Ribosome profiling; Biology; Eukaryotic translation; Start codon; Translation (biology); Open reading frame; Five prime untranslated region; Initiation factor; Shine-Dalgarno sequence; Stop codon; Internal ribosome entry site; Genetics; Protein biosynthesis; Translational regulation; Ribosome; Computational biology; Untranslated region; Cell biology; Amino acid; Messenger RNA; Peptide sequence; RNA; 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":[0.0004463232,0.0005518679,0.0004861333,0.0008372327,0.0004238993,0.0005933475,0.0002735393,0.0004707234,0.0008324371],"category_scores_gemma":[0.0008623789,0.0002088441,0.0005202434,0.0005296597,0.0002500074,0.0004226309,0.0003044426,0.0007485353,0.0008810905],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002898271,"about_ca_system_score_gemma":0.0002852646,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003479322,"about_ca_topic_score_gemma":0.001146817,"domain_scores_codex":[0.9997476,0.00002744849,0.00001921103,0.00008767548,0.00008530473,0.00003277722],"domain_scores_gemma":[0.9992943,0.0002283183,0.0002157617,0.00005907615,0.0001372962,0.00006522132],"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":[0.00008200787,0.000008867076,0.001401762,0.00009982675,0.00001440246,0.0001442002,0.00003335223,0.00004421884,0.9953038,0.0001256836,0.00005124288,0.002690761],"study_design_scores_gemma":[0.00001482461,0.0001312547,0.03384222,0.00003911367,0.0000875301,0.001293563,0.0001005938,0.003298494,0.954863,0.0005854883,0.005716229,0.00002771061],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9273238,0.00750262,0.0594212,0.0002759536,0.0001511018,0.0000958305,0.002398228,0.0003436745,0.002487599],"genre_scores_gemma":[0.8487308,0.004124762,0.1397403,0.0003463086,0.0001232841,0.0001082984,0.004342433,0.0002532972,0.002230475],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008372327,"threshold_uncertainty_score":0.002784789,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1103920258246406,"score_gpt":0.3859582026845067,"score_spread":0.2755661768598661,"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."}}