{"id":"W4365135538","doi":"10.1099/mgen.0.000979","title":"Comparing genomic variant identification protocols for Candida auris","year":2023,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":15,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Commissariat Général à l'Investissement; Centers for Disease Control and Prevention; Agence Nationale de la Recherche; National Institute of Allergy and Infectious Diseases; Division of Intramural Research, National Institute of Allergy and Infectious Diseases; Broad Institute; Wellcome Trust; Medical Research Council; Canadian Institute for Advanced Research; National Institutes of Health; U.S. Department of Health and Human Services","keywords":"Biology; Single-nucleotide polymorphism; Phylogenetic tree; Clade; Computational biology; Genetics; Concordance; Genome-wide association study; SNP; Population; Gene; Medicine; Genotype","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":[0.01187414,0.000784185,0.000736016,0.00214318,0.000923518,0.001863881,0.001427784,0.001195238,0.001149747],"category_scores_gemma":[0.03130484,0.00097514,0.001946159,0.00183805,0.0008331652,0.001026476,0.001930018,0.001679465,0.0009153773],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001333938,"about_ca_system_score_gemma":0.001482461,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004414326,"about_ca_topic_score_gemma":0.00617814,"domain_scores_codex":[0.9882292,0.002715277,0.002518855,0.002890406,0.003005449,0.0006409158],"domain_scores_gemma":[0.9884773,0.005310543,0.0009725228,0.002173744,0.002756826,0.000309041],"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":[0.003017758,0.0004805277,0.04837964,0.001811494,0.001024743,0.0003815683,0.00207261,0.01720055,0.7460475,0.003389496,0.003513798,0.1726804],"study_design_scores_gemma":[0.0001779921,0.001935432,0.09648588,0.000242185,0.0009345878,0.001463226,0.0007681107,0.04298714,0.8287627,0.003570373,0.02230726,0.0003650534],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.737038,0.003616051,0.241314,0.0007042902,0.000416397,0.002309539,0.006634857,0.003844759,0.004122046],"genre_scores_gemma":[0.4420395,0.001803275,0.5316289,0.0006899607,0.00006342262,0.002435502,0.01833891,0.001460004,0.001540413],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.01187414,"threshold_uncertainty_score":0.06279719,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0570976395604316,"score_gpt":0.3247589607406333,"score_spread":0.2676613211802017,"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."}}