{"id":"W4313494313","doi":"10.1101/2023.01.02.23284109","title":"Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1","year":2023,"lang":"en","type":"preprint","venue":"medRxiv","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; BlueDot (Canada)","funders":"Medical Research Council; Directorate for Biological Sciences; European Commission; Rockefeller Foundation; National Institute for Health and Care Research; UK Research and Innovation; Biotechnology and Biological Sciences Research Council; Department of Health and Social Care; Wellcome Trust","keywords":"Biological dispersal; Geography; Spatial epidemiology; Population; Economic geography; Transmission (telecommunications); Spatial ecology; Incidence (geometry); Human migration; Demography; Evolutionary biology; Cartography; Biology; Ecology; Epidemiology; Medicine; Telecommunications; Physics","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":[0.001302038,0.0003835811,0.001161425,0.0006594926,0.00003965177,0.00002143676,0.0006698756,0.0005108021,0.00001379589],"category_scores_gemma":[0.0002577597,0.0003538965,0.0004330996,0.0003592896,0.0002400826,0.00003328667,0.001465786,0.001121358,0.00007336015],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006388522,"about_ca_system_score_gemma":0.001493614,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001111448,"about_ca_topic_score_gemma":0.0004263965,"domain_scores_codex":[0.9967706,0.000158312,0.000962743,0.0007552613,0.0008953554,0.0004576851],"domain_scores_gemma":[0.9974527,0.0002309499,0.0004807615,0.001447179,0.0003463994,0.00004206104],"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":[0.0001236489,0.0002106268,0.3210089,0.002099016,0.0002072169,0.00006786374,0.0001184022,0.000008044902,0.6745981,0.0001758868,0.0002712189,0.001111133],"study_design_scores_gemma":[0.001512249,0.0003584272,0.2413896,0.001170623,0.0002330759,0.00001558658,0.0001110326,0.009825758,0.7408558,0.001273912,0.002903145,0.0003507875],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9942026,0.0002914551,0.0009569947,0.0005428147,0.000662893,0.00102103,0.0001180838,0.0000976842,0.002106434],"genre_scores_gemma":[0.9964491,0.0001310661,0.001220262,0.001647316,0.00016241,0.00007653552,0.0001002937,0.0001222773,0.00009072994],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.07961927,"threshold_uncertainty_score":0.9998913,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1046815710934557,"score_gpt":0.3988290940818072,"score_spread":0.2941475229883515,"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."}}