{"id":"W3092635922","doi":"10.1101/2020.10.11.333682","title":"A combination of metagenomic and cultivation approaches reveals hypermutator phenotypes within <i>Vibrio cholerae</i> infected patients","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill Genome Centre; Université de Montréal; McGill University","funders":"Global Affairs Canada; Department for International Development; International Centre for Diarrhoeal Disease Research, Bangladesh; Styrelsen för Internationellt Utvecklingssamarbete","keywords":"Vibrio cholerae; Metagenomics; Biology; Nonsynonymous substitution; Cholera; Genome; Whole genome sequencing; Genetics; Asymptomatic carrier; DNA sequencing; Microbiology; Gene; Asymptomatic; Virology; Medicine; Bacteria","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004481765,0.0004725291,0.0006818423,0.0009910705,0.0003816301,0.0009214503,0.0002805761,0.0005423742,0.0005707619],"category_scores_gemma":[0.0009547426,0.0003312663,0.0006458699,0.0007581479,0.0002505376,0.0003315244,0.0007019777,0.000559625,0.0001712096],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002993848,"about_ca_system_score_gemma":0.0002404885,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002275854,"about_ca_topic_score_gemma":0.002951793,"domain_scores_codex":[0.9994901,0.00008084512,0.00003829805,0.0001749322,0.0001083094,0.0001075196],"domain_scores_gemma":[0.9996754,0.00005918182,0.00008410598,0.00004064315,0.00007401298,0.00006661178],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0007107906,0.0001612782,0.3431416,0.0001301635,0.0003562404,0.0007021191,0.0009217254,0.0006754467,0.6372687,0.000142705,0.0003096449,0.01547964],"study_design_scores_gemma":[0.0000291397,0.001207752,0.884698,0.00006275015,0.0005167215,0.003850048,0.002319288,0.005606196,0.09863319,0.0003231301,0.002684516,0.00006929902],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9963452,0.0003355754,0.001865466,0.0001181556,0.00001531785,0.00004703448,0.0008433051,0.00003375447,0.0003962767],"genre_scores_gemma":[0.9951166,0.0002037711,0.003494337,0.0001140744,0.00001295925,0.0000263483,0.0008178157,0.00002083341,0.0001934199],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002275854,"threshold_uncertainty_score":0.004525304,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02320196986669172,"score_gpt":0.2238628419248977,"score_spread":0.200660872058206,"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."}}