{"id":"W3158704474","doi":"10.1128/msphere.00011-21","title":"Temporal Dynamics and Evolution of SARS-CoV-2 Demonstrate the Necessity of Ongoing Viral Genome Sequencing in Ontario, Canada","year":2021,"lang":"en","type":"article","venue":"mSphere","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Hospital for Sick Children; Health Sciences North; University Health Network; Mount Sinai Hospital; Kingston Health Sciences Centre; University of Ottawa; Queen's University; Ontario Genomics; Agricultural Research Institute of Ontario; Sunnybrook Health Science Centre; Public Health Ontario; Ontario Institute for Cancer Research; University of Toronto; McMaster University","funders":"Dalhousie University; Sunnybrook Research Institute; McMaster University","keywords":"Genome; Biology; Transmission (telecommunications); Mutation rate; Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Coronavirus disease 2019 (COVID-19); Evolutionary biology; Genetics; Mutation; Population; Genetic variation; Coronavirus; Transmission rate; Virology; Disease; Infectious disease (medical specialty); Gene; Medicine","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":[],"consensus_categories":[],"category_scores_codex":[0.0002685366,0.00009944382,0.0002612072,0.00003130208,0.00005160482,0.00001104206,0.00009212006,0.0000696162,0.00001403285],"category_scores_gemma":[0.00007185619,0.00008044585,0.00003999889,0.0002509114,0.0001030338,0.00006470376,0.00007736021,0.0003151315,4.692175e-7],"about_ca_system_candidate":true,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001950693,"about_ca_system_score_gemma":0.006664357,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.9784278,"about_ca_topic_score_gemma":0.9990414,"domain_scores_codex":[0.9989349,0.00007262692,0.0002785487,0.0001871304,0.0003073244,0.0002194945],"domain_scores_gemma":[0.9994829,0.00006267477,0.00008696239,0.0002278551,0.0001222275,0.00001740208],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0000610212,0.00002064943,0.7292903,0.0001267825,0.00002655765,0.0001337363,0.0002753236,0.000007389702,0.2692697,0.0001289966,0.00002416016,0.0006353292],"study_design_scores_gemma":[0.00145237,0.0001383574,0.7248729,0.0003046016,0.00005466248,0.0001088802,0.003916093,0.007727905,0.2598265,0.0004771279,0.0009359366,0.0001846559],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9962682,0.0005984446,0.0001252623,0.0001620919,0.00004034919,0.0001474801,0.00001091411,0.000005984246,0.002641246],"genre_scores_gemma":[0.9986444,0.000001771114,0.0002123395,0.001051619,0.00001615075,0.000003580139,0.000006359955,0.000009242967,0.00005459268],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02061359,"threshold_uncertainty_score":0.9989669,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03046642628335088,"score_gpt":0.2838425204099801,"score_spread":0.2533760941266292,"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."}}