{"id":"W3081047954","doi":"10.2196/20735","title":"The Novel Coronavirus Enigma: Phylogeny and Analyses of Coevolving Mutations Among the SARS-CoV-2 Viruses Circulating in India","year":2020,"lang":"en","type":"article","venue":"JMIR Bioinformatics and Biotechnology","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"University Grants Commission; Council of Scientific and Industrial Research, India; Indian Council of Medical Research","keywords":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Phylogenetics; Coronavirus; Coronavirus disease 2019 (COVID-19); Virology; Biology; 2019-20 coronavirus outbreak; Betacoronavirus; Sars virus; Evolutionary biology; Genetics; Gene; Medicine; Outbreak; Infectious disease (medical specialty); Disease; Pathology","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":true,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002392258,0.0001406588,0.0002780423,0.000187221,0.0002025909,0.00005008577,0.0001892979,0.0002329923,5.779048e-7],"category_scores_gemma":[0.0003817826,0.00008186052,0.00005060322,0.0006439655,0.0008343363,0.00008714367,0.0002196977,0.0004158189,0.000002661229],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002284431,"about_ca_system_score_gemma":0.00008230982,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001758141,"about_ca_topic_score_gemma":0.00009591372,"domain_scores_codex":[0.9989095,0.00001974207,0.0004753744,0.0001421448,0.0001915648,0.0002616433],"domain_scores_gemma":[0.9992248,0.0002690069,0.0001903947,0.0002337316,0.00006195294,0.0000201183],"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":[0.00006964014,0.00005609067,0.06290307,0.0002262218,0.0001202918,0.00001542657,0.002674606,0.000001515036,0.9063801,0.001359411,0.00002909945,0.02616457],"study_design_scores_gemma":[0.002335559,0.0005714566,0.1781176,0.0001507816,0.0001058268,0.0001438837,0.008998547,0.1029923,0.6994119,0.0003926316,0.006490722,0.0002887203],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9969663,0.0006812711,0.0004351211,0.001106254,0.00001673844,0.0005071493,0.00001578807,0.00004137532,0.0002300123],"genre_scores_gemma":[0.9939683,0.00006242956,0.0006351132,0.005273507,0.00001764942,0.00003129372,0.000001729852,0.000009479351,4.77478e-7],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2069681,"threshold_uncertainty_score":0.3338175,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09323465206754732,"score_gpt":0.3829306781773421,"score_spread":0.2896960261097948,"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."}}