{"id":"W4403923272","doi":"10.3390/microorganisms12112187","title":"How Trustworthy Are the Genomic Sequences of SARS-CoV-2 in GenBank?","year":2024,"lang":"en","type":"article","venue":"Microorganisms","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"GenBank; Genome; Annotation; Biology; Phylogenetic tree; Genetics; Computational biology; Genome project; Gene","routes":{"ca_aff":true,"ca_fund":true,"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":[],"consensus_categories":[],"category_scores_codex":[0.0004038941,0.0001935939,0.0003405605,0.0002314453,0.00005807073,0.0001220257,0.0003366611,0.0001311847,0.00001896015],"category_scores_gemma":[0.00006347902,0.0001293176,0.0001374121,0.0006353712,0.0002443347,0.00008964541,0.0001137167,0.0004274976,0.0001837289],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001747977,"about_ca_system_score_gemma":0.0003939828,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002503421,"about_ca_topic_score_gemma":0.0002480735,"domain_scores_codex":[0.9985662,0.00007039015,0.0002676773,0.0003826985,0.0003192435,0.0003938482],"domain_scores_gemma":[0.9993071,0.0001091462,0.00005519495,0.0004375426,0.00007212,0.0000188966],"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":[0.00004659233,0.00004864497,0.01268809,0.0002127225,0.00005442604,0.0003348625,0.0009233803,1.563573e-7,0.9829429,0.0001667962,0.0009696536,0.001611786],"study_design_scores_gemma":[0.0004115093,0.0001066673,0.005051391,0.0001512832,0.00004082693,0.0001290045,0.0008038108,0.00006392867,0.9099724,0.0003176836,0.08282523,0.0001262935],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9850102,0.009271304,0.00007349916,0.004147874,0.0002107787,0.0003961137,0.0000203302,0.00007634546,0.0007935358],"genre_scores_gemma":[0.9878441,0.00003314233,0.0001629914,0.011528,0.0002017826,0.0000213494,0.000002594482,0.00004867592,0.0001573572],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08185558,"threshold_uncertainty_score":0.5273418,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04755243426054495,"score_gpt":0.3264903501455877,"score_spread":0.2789379158850428,"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."}}