{"id":"W4411296621","doi":"10.1101/2025.06.11.659236","title":"Passage of human-origin influenza A virus in swine tracheal epithelial cells selects for adaptive mutations in the hemagglutinin gene","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Influenza Virus Research Studies","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Nexen (Canada)","funders":"","keywords":"Hemagglutinin (influenza); Virology; Gene; Virus; Biology; Influenza A virus; H5N1 genetic structure; Genetics; Coronavirus disease 2019 (COVID-19); Medicine; Infectious disease (medical specialty)","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":[0.0002341088,0.0001489714,0.0001478864,0.00007749279,0.0001592731,0.0001783349,0.0001107282,0.000197673,0.0008323725],"category_scores_gemma":[0.0001248655,0.00009185092,0.0002380884,0.000107054,0.0001002386,0.0001031186,0.0001257626,0.0002194234,0.0003163717],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001787573,"about_ca_system_score_gemma":0.0001608121,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00175195,"about_ca_topic_score_gemma":0.00196032,"domain_scores_codex":[0.9999002,0.00002657686,0.00001056886,0.00001930388,0.00002065686,0.00002264731],"domain_scores_gemma":[0.9999233,0.0000207739,0.00001207776,0.00001688814,0.0000128231,0.00001403033],"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":[0.00004164419,0.00001660194,0.001467986,0.000008258759,0.000003628907,0.00004130053,0.00001571468,0.00003046069,0.9979488,0.000019393,0.000028615,0.0003775934],"study_design_scores_gemma":[0.00002786872,0.001917968,0.1017758,0.0000126376,0.00003813921,0.001481473,0.000193311,0.002695359,0.8891344,0.00006523714,0.0026482,0.00000963514],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9986197,0.0001681912,0.0005470812,0.00002112597,0.000007876466,0.00001090891,0.0001565972,0.000009947675,0.0004586195],"genre_scores_gemma":[0.9964631,0.0001658651,0.001634947,0.00003450577,0.000005358549,0.00001481797,0.000841289,0.000006484637,0.0008336724],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00175195,"threshold_uncertainty_score":0.003483534,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07146306415476437,"score_gpt":0.3480446054174209,"score_spread":0.2765815412626565,"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."}}