{"id":"W4409161212","doi":"10.3390/v17040527","title":"Genetic and Phenotypic Investigations of Viral Subpopulations Detected in Different Tissues of Laying Hens Following Infectious Bronchitis Virus Infection","year":2025,"lang":"en","type":"article","venue":"Viruses","topic":"Animal Virus Infections Studies","field":"Agricultural and Biological Sciences","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"Cumming School of Medicine, University of Calgary; Egg Farmers of Canada","keywords":"Biology; Infectious bronchitis virus; Virus; Hypervariable region; Gene; Virology; Avian infectious bronchitis; Avian infectious bronchitis virus; Coding region; Phylogenetic tree; Population; Phenotype; Genetics; Infectious disease (medical specialty); Coronavirus disease 2019 (COVID-19); Pathology; Disease","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00005536732,0.0001232759,0.0002341235,0.00009635463,0.0002061927,0.00001750133,0.00005078304,0.00006881008,0.00002196041],"category_scores_gemma":[0.000202227,0.00006379726,0.00005950466,0.0006048653,0.0001176799,0.0001079069,0.00007918541,0.00008429595,0.000001343602],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000352138,"about_ca_system_score_gemma":0.000008723179,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.01359437,"about_ca_topic_score_gemma":0.01829616,"domain_scores_codex":[0.9991856,0.000084708,0.00032817,0.0001754935,0.00008807845,0.0001380016],"domain_scores_gemma":[0.9995555,0.000221737,0.0001058473,0.00004651111,0.00004452033,0.0000258383],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.000005236083,0.00005750158,0.75826,0.00001348417,0.00002629749,2.684328e-7,0.00007601471,0.00004761143,0.2357985,0.0003473214,0.000007536997,0.005360298],"study_design_scores_gemma":[0.0001439055,0.0001377687,0.984742,0.00008054154,0.00004231375,7.891618e-7,0.0001316228,0.00004310352,0.01246657,0.001949046,0.0001692889,0.0000930436],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987708,0.00053618,0.00004983442,0.0000356116,0.0001117436,0.0001965641,0.00002645505,0.00005825818,0.0002145028],"genre_scores_gemma":[0.999599,0.0002000625,0.00008798714,0.00003244177,0.000031736,0.00002972984,0.000004833055,0.00000123813,0.00001298314],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.226482,"threshold_uncertainty_score":0.9996174,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02663880053604428,"score_gpt":0.2616447384922701,"score_spread":0.2350059379562258,"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."}}