{"id":"W4312189262","doi":"10.2196/42243","title":"Mutational Patterns Observed in SARS-CoV-2 Genomes Sampled From Successive Epochs Delimited by Major Public Health Events in Ontario, Canada: Genomic Surveillance Study","year":2022,"lang":"en","type":"article","venue":"JMIR Bioinformatics and Biotechnology","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo; University of Prince Edward Island; Western University","funders":"Compute Canada","keywords":"Genome; Whole genome sequencing; Biology; Public health; Genetics; Genomics; Public health surveillance; Copy-number variation; Evolutionary biology; Computational biology; Medicine; Gene","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":true,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003286306,0.0003051903,0.0003298777,0.00239437,0.001629382,0.0007280951,0.000626739,0.0002937333,0.0009510557],"category_scores_gemma":[0.001287033,0.0002166128,0.0004119447,0.005116479,0.0005731988,0.0001926242,0.0006274981,0.0003001828,0.0001559984],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.01366545,"about_ca_system_score_gemma":0.0167421,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.9820229,"about_ca_topic_score_gemma":0.99199,"domain_scores_codex":[0.9994318,0.00002411981,0.00003546854,0.0001457027,0.0001770711,0.0001858406],"domain_scores_gemma":[0.9985988,0.00006744977,0.00034147,0.00005098985,0.0007078225,0.0002336101],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001828177,0.00001546062,0.9859107,0.000104989,0.00007535076,0.0002342173,0.001763452,0.000332993,0.00453679,0.0001091241,0.001097581,0.005636589],"study_design_scores_gemma":[0.00000233093,0.00001322318,0.997726,0.00001347981,0.00001533846,0.00006003721,0.0009148777,0.000173539,0.0001582358,0.00000703494,0.0009109417,0.000004953798],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9852738,0.000407926,0.000202929,0.00008329578,0.000004843987,0.00005237341,0.01261602,0.00001366216,0.001345361],"genre_scores_gemma":[0.9890104,0.0004521919,0.0005316793,0.00008812661,0.000003830306,0.0000324717,0.008820435,0.000007631855,0.001053368],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01797706,"threshold_uncertainty_score":0.09915018,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05172404523421847,"score_gpt":0.3076566426740631,"score_spread":0.2559325974398446,"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."}}