{"id":"W2920917760","doi":"10.1016/j.meegid.2019.02.032","title":"Genomic characterization of hepatitis C virus transmitted founder variants with deep sequencing","year":2019,"lang":"en","type":"article","venue":"Infection Genetics and Evolution","topic":"Hepatitis C virus research","field":"Medicine","cited_by":21,"is_retracted":false,"has_abstract":false,"ca_institutions":"Université de Montréal","funders":"National Institute on Drug Abuse; Medical Research Council; National Institutes of Health; National Institute of Allergy and Infectious Diseases; Rijksinstituut voor Volksgezondheid en Milieu; National Health and Medical Research Council; Department of Health, State Government of Victoria; Canadian Institutes of Health Research; University of New South Wales","keywords":"Biology; Deep sequencing; Viral quasispecies; Haplotype; Virology; Genetics; Genome; Virus; Hepatitis C virus; Genotype; 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":[0.0001188909,0.00009046599,0.0001595401,0.000163904,0.00005307211,0.00001593792,0.00001902703,0.00008945197,0.0001286842],"category_scores_gemma":[0.00001093323,0.0000841435,0.000026311,0.0002103307,0.00004434768,0.00008797737,0.00001169527,0.0000986547,0.00003026484],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002125657,"about_ca_system_score_gemma":0.0001283575,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001911446,"about_ca_topic_score_gemma":0.0006981536,"domain_scores_codex":[0.9992182,0.00004473468,0.0001965478,0.0001822864,0.0002057743,0.0001525149],"domain_scores_gemma":[0.9995166,0.0000127032,0.00007461771,0.0001426149,0.0001837621,0.00006970346],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00004653757,0.00002056873,0.5585396,0.00006745337,0.00002762266,0.000001158684,0.00009606068,0.00007205057,0.4364991,0.00006013097,8.69174e-7,0.004568924],"study_design_scores_gemma":[0.0008022062,0.0005275629,0.9565862,0.00006065193,0.00004193804,0.00003077894,0.000005507206,0.03271642,0.008800867,0.00006973051,0.0002714007,0.00008670361],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9514671,0.00006541159,0.04732011,0.00003214003,0.0001027409,0.0004183601,0.000009515063,0.00002555806,0.0005590619],"genre_scores_gemma":[0.9980337,0.001291421,0.0004188855,0.00003651817,0.00005545105,0.00001198911,0.00004798812,0.00001939299,0.00008466242],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4276982,"threshold_uncertainty_score":0.3431273,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01514225776251646,"score_gpt":0.2494557108237604,"score_spread":0.2343134530612439,"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."}}