{"id":"W2883188821","doi":"10.1186/s12931-018-0835-7","title":"Decreased microbiome diversity in the HIV small airway epithelium","year":2018,"lang":"en","type":"article","venue":"Respiratory Research","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":22,"is_retracted":false,"has_abstract":true,"ca_institutions":"St. Paul's Hospital; BC Cancer Agency; University of British Columbia","funders":"Canadian Institutes of Health Research; Michael Smith Health Research BC; British Columbia Lung Association; St. Paul's Foundation; American Thoracic Society","keywords":"Veillonella; Prevotella; Firmicutes; Bacteroidetes; Microbiome; Proteobacteria; Biology; Fusobacterium; Human microbiome; Human immunodeficiency virus (HIV); Immunology; Microbiology; Medicine; Streptococcus; 16S ribosomal RNA; Bacteria; Bioinformatics; Bacteroides; Genetics","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":[0.0002233927,0.0001896294,0.0003348549,0.0005043616,0.0005466181,0.0007413225,0.0001575881,0.0003102343,0.001514437],"category_scores_gemma":[0.0006478464,0.0001452842,0.0001728687,0.0003461201,0.0002958603,0.0003070356,0.0004929474,0.000290266,0.0001396726],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001604399,"about_ca_system_score_gemma":0.0001763015,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001527275,"about_ca_topic_score_gemma":0.001726361,"domain_scores_codex":[0.9997898,0.00004158849,0.00001595451,0.00005872955,0.00005390406,0.00004008339],"domain_scores_gemma":[0.9997708,0.00004341164,0.00007069828,0.0000152528,0.00005649243,0.00004338539],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001217494,0.0001254357,0.7575156,0.0002785415,0.0001803518,0.0008186178,0.00118355,0.0001856178,0.2145398,0.00008354313,0.0002684846,0.02360301],"study_design_scores_gemma":[0.000009829609,0.0005643375,0.9861013,0.00005695198,0.00008154408,0.001700501,0.001335014,0.0005178669,0.00853353,0.0001339428,0.0009538421,0.00001123819],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988129,0.0006764395,0.000132591,0.00002089785,0.00000435897,0.000007097683,0.0001471465,0.000004063104,0.0001945652],"genre_scores_gemma":[0.9989274,0.0002593131,0.0003411878,0.00003563222,0.000006337767,0.00001204023,0.0002562483,0.000002044369,0.0001598548],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001527275,"threshold_uncertainty_score":0.005066276,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1318009837768454,"score_gpt":0.3760950357304626,"score_spread":0.2442940519536172,"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."}}