{"id":"W3182124707","doi":"10.1016/j.cell.2021.05.023","title":"Translocated microbiome composition determines immunological outcome in treated HIV infection","year":2021,"lang":"en","type":"article","venue":"Cell","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":80,"is_retracted":false,"has_abstract":false,"ca_institutions":"Université de Montréal; Centre Hospitalier de l’Université de Montréal","funders":"National Institute of Allergy and Infectious Diseases; National Institute on Drug Abuse; National Institute of Diabetes and Digestive and Kidney Diseases; National Heart, Lung, and Blood Institute; Canadian Institutes of Health Research; National Institutes of Health; Case Western Reserve University","keywords":"Biology; Microbiome; Serratia; Abundance (ecology); Immunology; Innate immune system; Inflammation; Downregulation and upregulation; Gene; Microbiology; Genetics; Immune system; Ecology; 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":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00006724319,0.0001348371,0.0002173149,0.0001210602,0.00008441634,0.00001447216,0.000062435,0.0002062608,0.0008159973],"category_scores_gemma":[0.000009278013,0.0001130838,0.0000821418,0.0001994868,0.00009312885,0.00004921349,0.00002790758,0.0002074736,0.002589001],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007983197,"about_ca_system_score_gemma":0.00003104144,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001814981,"about_ca_topic_score_gemma":0.00008552848,"domain_scores_codex":[0.9989475,0.0002386342,0.0002346986,0.0002496064,0.00001840308,0.0003111863],"domain_scores_gemma":[0.9996812,0.00005612988,0.00003125322,0.0001614251,0.00005047053,0.00001956083],"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":[0.0001018275,0.0005948835,0.08468942,0.00001651681,0.00003844012,0.0001663175,0.00008257262,0.00000350819,0.9124204,0.000004079948,0.0001700748,0.001711959],"study_design_scores_gemma":[0.002818764,0.0001342627,0.1368187,0.00001469325,0.00001957308,0.0001140878,0.00001768275,0.000002780011,0.8541549,0.000008807944,0.005779787,0.0001160314],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9961779,0.001725803,0.00005634754,0.0001934387,0.0001312616,0.0001630482,0.00005823683,0.00007022247,0.001423798],"genre_scores_gemma":[0.9940637,0.0001538722,0.00003884218,0.00003699851,0.000006421196,0.00002888307,0.001868456,0.00000879616,0.003794076],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05826552,"threshold_uncertainty_score":0.9981876,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02130830917816774,"score_gpt":0.2664418531544683,"score_spread":0.2451335439763005,"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."}}