{"id":"W2940717918","doi":"10.1016/j.jinf.2019.04.013","title":"Avian influenza A viruses H5Nx (N1, N2, N6 and N8) show different adaptations of their codon usage patterns to their hosts","year":2019,"lang":"en","type":"letter","venue":"Journal of Infection","topic":"Influenza Virus Research Studies","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Toronto","funders":"Natural Science Foundation of Guangdong Province; National Natural Science Foundation of China","keywords":"Influenza A virus subtype H5N1; Virology; Biology; Virus; Pathogenicity; Highly pathogenic; Clade; Host (biology); Avian influenza virus; Gene; Phylogenetic tree; Genetics; Microbiology","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0005050066,0.0004691324,0.001182879,0.001144907,0.0001341783,0.00007480912,0.0001491284,0.0004612166,0.00009720658],"category_scores_gemma":[0.0006213921,0.0003058667,0.000415431,0.0002551986,0.0001194088,0.0002575306,0.0001561607,0.00213508,0.00002155903],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003800282,"about_ca_system_score_gemma":0.000196187,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003315502,"about_ca_topic_score_gemma":0.0002005001,"domain_scores_codex":[0.9971693,0.0002746402,0.0009988158,0.0002887914,0.0008346658,0.000433825],"domain_scores_gemma":[0.9968622,0.000630272,0.0009499015,0.0003900094,0.001008084,0.0001595329],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001192154,0.0004550175,0.7584995,0.002167712,0.002851482,0.0002187124,0.005291109,0.00007117586,0.01844969,0.000007522604,0.188499,0.02229691],"study_design_scores_gemma":[0.001975224,0.002611117,0.6899489,0.002584369,0.0003254479,0.000260603,0.0001968897,0.00002163784,0.004474367,0.00004234571,0.297244,0.0003151339],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9704684,0.0008816759,0.0004619166,0.02610411,0.0007045871,0.0008660114,0.0002096743,0.0000246344,0.0002789623],"genre_scores_gemma":[0.8118526,0.002856251,0.00009240361,0.1809331,0.003708255,0.00004321147,0.00002937709,0.0001223152,0.0003625244],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1586159,"threshold_uncertainty_score":0.9999393,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1062278393674324,"score_gpt":0.3628207129427828,"score_spread":0.2565928735753504,"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."}}