{"id":"W4207011004","doi":"10.1101/2022.01.20.476458","title":"Genomic and transcriptomic characterization of Delta SARS-CoV-2 infection in free-ranging white-tailed deer ( <i>Odocoileus virginianus</i> )","year":2022,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University of Manitoba; Public Health Agency of Canada; University of Saskatchewan; Environment and Climate Change Canada; Ministère des Ressources naturelles et des Forêts; Canadian Food Inspection Agency; Ministry of Energy, Northern Development and Mines; Sunnybrook Hospital","funders":"Sunnybrook Research Institute","keywords":"Odocoileus; Biology; Transcriptome; Host (biology); Virology; Clade; Wildlife; Gene; Genetics; Zoology; Gene expression; Phylogenetics; Ecology","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"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":[0.001026974,0.0005629691,0.0009635157,0.001208521,0.00012251,0.0001130017,0.0004034213,0.0005476341,0.00002745881],"category_scores_gemma":[0.0001907656,0.0006640455,0.0002131829,0.00102722,0.0001614401,0.0002479061,0.0005021271,0.001369793,0.00001202328],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000690911,"about_ca_system_score_gemma":0.0009503967,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004947789,"about_ca_topic_score_gemma":0.00006806153,"domain_scores_codex":[0.9965411,0.0002552829,0.0008804047,0.001060557,0.0005989767,0.0006636446],"domain_scores_gemma":[0.9979123,0.00005609122,0.0003998067,0.001230952,0.0003198689,0.00008091666],"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":[0.0002321354,0.0001737234,0.3383895,0.0009288208,0.0000996224,0.00007146235,0.00006076621,0.000003829612,0.6599835,0.00002717864,0.00002146498,0.000008015503],"study_design_scores_gemma":[0.002007312,0.0001079886,0.4761436,0.0004271726,0.0001407416,2.150173e-7,0.000003288482,0.0006922981,0.5108679,0.000001757571,0.00917674,0.0004309424],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9950223,0.000987352,0.0007532744,0.0002408953,0.0008300483,0.001583163,0.0003388938,0.000220618,0.00002347899],"genre_scores_gemma":[0.9947706,0.0002594387,0.0003761539,0.003689909,0.0002609532,0.0004567122,0.000003320629,0.0001806771,0.000002188278],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1491156,"threshold_uncertainty_score":0.9995811,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02085146986512121,"score_gpt":0.2643840105968753,"score_spread":0.2435325407317541,"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."}}