{"id":"W1593377767","doi":"10.1111/mmi.13079","title":"Nonoptimal codon usage influences protein structure in intrinsically disordered regions","year":2015,"lang":"en","type":"article","venue":"Molecular Microbiology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":125,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Institute of General Medical Sciences; National Cancer Institute; Fonds de Recherche du Québec - Santé; National Institutes of Health; Welch Foundation","keywords":"Codon usage bias; Biology; Translation (biology); Genetics; Genome; Folding (DSP implementation); Protein folding; Computational biology; Neurospora; Gene; Messenger RNA; Cell biology; Neurospora crassa","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002242564,0.0002504209,0.0002655052,0.00009615911,0.00004414472,0.00002930681,0.0003832074,0.0004151799,0.0000254628],"category_scores_gemma":[0.0002153702,0.0002305964,0.00008511262,0.000156125,0.0001666439,0.000005457987,0.0002028038,0.0001676434,0.00002329974],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002511382,"about_ca_system_score_gemma":0.0001397074,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005300926,"about_ca_topic_score_gemma":0.0001222374,"domain_scores_codex":[0.9983691,0.0003153553,0.0002971506,0.0005382319,0.00006512333,0.0004150555],"domain_scores_gemma":[0.9992384,0.000008866626,0.0001056778,0.0004428524,0.00008426683,0.0001198867],"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":[0.0001537293,0.00004847428,0.0003430982,0.00000771598,0.00002898411,0.00003796789,0.00005066928,0.0001433415,0.9973896,0.0006565825,0.000292826,0.0008470136],"study_design_scores_gemma":[0.000882509,0.0005081639,0.0001039656,0.00002105288,0.000009591486,0.00008533903,0.00005382808,0.000006008136,0.9458882,0.001805575,0.05031311,0.0003226489],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9932325,0.0008348404,0.004229689,0.0004519428,0.0001122282,0.0005254596,0.0000430347,0.0000197193,0.0005505562],"genre_scores_gemma":[0.9934789,0.00001606487,0.005399098,0.0004983219,0.00006242388,0.0000605612,0.0002010691,0.00003079275,0.0002527606],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05150139,"threshold_uncertainty_score":0.9403447,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01027342187322156,"score_gpt":0.2301786380404492,"score_spread":0.2199052161672277,"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."}}