{"id":"W4319233382","doi":"10.1101/2023.02.03.526952","title":"The fitness effects of codon composition of the horizontally transferred antibiotic resistance genes intensify at sub-lethal antibiotic levels","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"Israel Science Foundation","keywords":"Codon usage bias; Biology; Gene; Genetics; Genetic code; Start codon; Synonymous substitution; Horizontal gene transfer; Stop codon; Genome; Messenger 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000190458,0.0003685914,0.0003240016,0.0002841249,0.0001290145,0.0004067661,0.0001915025,0.0002711701,0.0009031731],"category_scores_gemma":[0.0003526441,0.0001611873,0.0001942919,0.000217698,0.000245311,0.0001364695,0.0003087437,0.0005332754,0.0001561889],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002725363,"about_ca_system_score_gemma":0.0001384305,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004511354,"about_ca_topic_score_gemma":0.0006604859,"domain_scores_codex":[0.9996573,0.00009069678,0.000032725,0.00006035736,0.0001038641,0.00005504003],"domain_scores_gemma":[0.9995914,0.0001216496,0.0001179141,0.00005180265,0.00005409563,0.0000630812],"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":[0.00005993923,0.00001440338,0.0004177811,0.000007823952,0.000004428689,0.00001223878,0.000005249267,0.00007800071,0.9987963,0.00002713936,0.000003804147,0.0005728612],"study_design_scores_gemma":[0.000007205476,0.0004260727,0.00998687,0.00000424532,0.00001791097,0.0001183612,0.00002927319,0.001861402,0.987231,0.00003820682,0.0002726237,0.000006934502],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9985889,0.00009583443,0.0009175002,0.00001803663,0.000003878852,0.000006471301,0.00005957616,0.0000182162,0.0002914795],"genre_scores_gemma":[0.9983118,0.00006219881,0.00112438,0.00001964735,0.000002231956,0.000009558638,0.0001071404,0.00001424704,0.0003487565],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009031731,"threshold_uncertainty_score":0.003021359,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01350319488734061,"score_gpt":0.2154892423105708,"score_spread":0.2019860474232302,"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."}}