{"id":"W4286209393","doi":"10.1017/s0950268822001285","title":"Spatial growth rate of emerging SARS-CoV-2 lineages in England, September 2020–December 2021","year":2022,"lang":"en","type":"article","venue":"Epidemiology and Infection","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Infection and Immunity; Great Ormond Street Institute of Child Health; Medical Research Council; Barts Health NHS Trust; UK Research and Innovation; Sheffield Teaching Hospitals NHS Foundation Trust; St George's University Hospitals NHS Foundation Trust; University College London Hospitals NHS Foundation Trust; Newcastle upon Tyne Hospitals NHS Foundation Trust; Cambridge University Hospitals; Norfolk and Norwich University Hospitals NHS Foundation Trust; Public Health Agency; University of Glasgow; University of Brighton; Public Health England; Queen's University Belfast; Cardiff University; Quadram Institute Bioscience; Newcastle University; Imperial College London; University of St Andrews; Queen's University; Directorate for Biological Sciences; University of East Anglia; Bournemouth University; University of Cambridge; Department of Health and Social Care; Academy of Medical Sciences; National Institute for Health and Care Research; University of Oxford; Royal Devon and Exeter NHS Foundation Trust; Middlesex University; National Institute for Health Research Health Protection Research Unit; Royal Free London NHS Foundation Trust; University Hospital Southampton NHS Foundation Trust; King's College Hospital NHS Foundation Trust; King's College London; University of Nottingham; Public Health Wales; University Hospitals of Leicester NHS Trust; University College London; Imperial College Healthcare NHS Trust; University of Southampton; Nottingham University Hospitals NHS Trust; Swansea University; Great Ormond Street Hospital for Children; NHS Greater Glasgow and Clyde; Royal Marsden NHS Foundation Trust; Northumbria University; University of Exeter; University of Portsmouth; Betsi Cadwaladr University Health Board","keywords":"Coronavirus disease 2019 (COVID-19); Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Outbreak; 2019-20 coronavirus outbreak; Lineage (genetic); Biology; Delta; Population; Demography; Geography; Veterinary medicine; Virology; Genetics; Medicine; Physics; Pathology","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005718152,0.0001128364,0.0001814333,0.0008144492,0.0002051968,0.0005682392,0.0002456679,0.0001789681,0.0009485626],"category_scores_gemma":[0.002663421,0.0001253086,0.0001940003,0.0006699798,0.0001586668,0.000395244,0.0005775088,0.0001636072,0.0003770857],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006674347,"about_ca_system_score_gemma":0.0002747162,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.05106809,"about_ca_topic_score_gemma":0.07363575,"domain_scores_codex":[0.9996554,0.00008425048,0.00004104752,0.00009691902,0.00007942395,0.00004309883],"domain_scores_gemma":[0.9982213,0.00032807,0.0007163536,0.0001193211,0.0005290681,0.0000858571],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001218016,0.000005857057,0.9891594,0.00002353087,0.00002659215,0.0001458407,0.000426227,0.001225049,0.001598585,0.00009000061,0.0003387886,0.006838327],"study_design_scores_gemma":[0.000002567821,0.00001969011,0.9966049,0.000008359084,0.000007090569,0.0001715308,0.0002534734,0.00191049,0.0002756045,0.00002997937,0.0007115182,0.000004784387],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9961656,0.0001679104,0.0009066333,0.00005384066,0.000003664588,0.000007276299,0.00164315,0.00001779134,0.001034234],"genre_scores_gemma":[0.9963014,0.000129829,0.0009374624,0.00001132077,0.00000511325,0.00001159643,0.002040645,0.000005631789,0.0005569546],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05106809,"threshold_uncertainty_score":0.1015417,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04798708023564772,"score_gpt":0.3724925393761069,"score_spread":0.3245054591404591,"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."}}