{"id":"W4224669774","doi":"10.1038/s41564-022-01091-2","title":"Population genomics confirms acquisition of drug-resistant Aspergillus fumigatus infection by humans from the environment","year":2022,"lang":"en","type":"article","venue":"Nature Microbiology","topic":"Antifungal resistance and susceptibility","field":"Medicine","cited_by":240,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Natural Environment Research Council; Medical Research Council; Directorate for Biological Sciences; Medical Research Council Centre for Medical Mycology; Trinity College Dublin; Wellcome; Imperial College London; Research Councils UK; Biotechnology and Biological Sciences Research Council; University of Exeter; Cystic Fibrosis Trust; Department of Health and Social Care; National Institute for Health and Care Research; Gilead Sciences; Sight Research UK; Wellcome Trust; Canadian Institute for Advanced Research","keywords":"Biology; Aspergillus fumigatus; Drug resistance; Population; Genetics; Antifungal drug; Genome; Azole; Gene; Clade; Genotype; Microbiology; Candida albicans; Antifungal; Phylogenetics; Medicine","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002693023,0.0001274664,0.0002726555,0.00003379783,0.0002320664,0.00000434277,0.00009421551,0.0002043245,0.0008214068],"category_scores_gemma":[0.0000231035,0.00009540289,0.0001180658,0.00007809335,0.0001237104,0.0000219589,0.00008026553,0.0006234465,0.000009520839],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003591862,"about_ca_system_score_gemma":0.00003443416,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008348033,"about_ca_topic_score_gemma":0.0002623658,"domain_scores_codex":[0.9989387,0.0001992233,0.0002843536,0.0003062811,0.00009990066,0.0001715059],"domain_scores_gemma":[0.9993586,0.00009271247,0.0001618054,0.0003259402,0.00003049401,0.00003047575],"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":[0.000486674,0.0001226303,0.09981771,0.0000126715,0.00006247435,0.000002565066,0.0002295079,0.00002500273,0.8942161,0.0002510602,0.004449093,0.0003245705],"study_design_scores_gemma":[0.001345964,0.0003848831,0.8447558,0.00001689679,0.000162391,0.00001351107,0.0003745108,0.00001722228,0.04545718,0.0004173088,0.1068734,0.0001809809],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993931,0.003613962,0.00005775816,0.000835248,0.0003020197,0.0003608931,0.0007482885,0.00002036245,0.0001305007],"genre_scores_gemma":[0.9949307,0.0001168125,0.00006181785,0.001007337,0.00007961121,0.00001476369,0.003490146,0.0000132879,0.0002855222],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8487589,"threshold_uncertainty_score":0.8993828,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00489934870791853,"score_gpt":0.2255662881067755,"score_spread":0.2206669393988569,"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."}}