{"id":"W2968100752","doi":"10.1101/738427","title":"An alternative AUG codon in segment 5 of the 2009 pandemic influenza A virus is a swine-derived virulence motif","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Influenza Virus Research Studies","field":"Medicine","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa","funders":"Biotechnology and Biological Sciences Research Council; University of Ottawa; Directorate for Biological Sciences; Institute of Infection and Immunity; Canadian Institutes of Health Research; National Institute for Health and Care Research; Wellcome Trust","keywords":"Biology; Virology; Virus; Gene; Start codon; Virulence; Pandemic; Codon usage bias; Influenza A virus; Genetics; Untranslated region; Stop codon; Viral replication; Genome; Messenger RNA; Coronavirus disease 2019 (COVID-19); Infectious disease (medical specialty)","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0001093887,0.0002670659,0.0001606086,0.0001535835,0.0002771655,0.0002267465,0.0001390985,0.0003894691,0.001362178],"category_scores_gemma":[0.00019874,0.00009822559,0.0003699834,0.0001295716,0.0001888034,0.0001352745,0.0001727021,0.0004723132,0.0006244194],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002718193,"about_ca_system_score_gemma":0.0002144399,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006780702,"about_ca_topic_score_gemma":0.0008259763,"domain_scores_codex":[0.999905,0.00002572961,0.000008729966,0.00002423146,0.00001974721,0.00001658213],"domain_scores_gemma":[0.9999034,0.00002427199,0.00002524041,0.00001357397,0.00001042145,0.0000230702],"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":[0.0002653436,0.00002293426,0.0008819296,0.00003685919,0.000007469048,0.0005190744,0.00003281609,0.0001254166,0.9957936,0.0004453253,0.0001181786,0.001751099],"study_design_scores_gemma":[0.00003929414,0.0006193831,0.02031699,0.00003687687,0.00003954942,0.002137708,0.0001082386,0.00315562,0.959653,0.0003736396,0.01350296,0.00001680018],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993724,0.0006718055,0.003796956,0.0001118173,0.0001024789,0.00002640192,0.0002888523,0.00006158643,0.001215976],"genre_scores_gemma":[0.9915692,0.0002154111,0.004762794,0.0001178544,0.00003112651,0.00001847272,0.001140292,0.00002394677,0.002120969],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001362178,"threshold_uncertainty_score":0.004556954,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05122298544740293,"score_gpt":0.3229666624893201,"score_spread":0.2717436770419172,"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."}}