Long-term benefit of DAAs on gut dysbiosis and microbial translocation in HCV-infected patients with and without HIV coinfection/Experiment 5

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Curated date: 2024/04/02

Curator: Scholastica

Revision editor(s): Scholastica, Idiaru angela

Subjects

Location of subjects

Thailand

Host species Species from which microbiome was sampled. Contact us to have more species added.

Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology

Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Response to antiviral drug Response to antiviral drug,response to antiviral drug

Group 0 name Corresponds to the control (unexposed) group for case-control studies

Patients with significant fibrosis to cirrhosis at baseline (F2–F4)

Group 1 name Corresponds to the case (exposed) group for case-control studies

Patients with significant fibrosis to cirrhosis at FUw72 (F2–F4)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

Patients with significant fibrosis to cirrhosis (F2–F4) at week 72 after treatment completion (FUw72)

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

Patients were asked to stop antibiotics within 2 weeks before acceptance and during the study period.

Lab analysis

Sequencing type

16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

V3-V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

Illumina

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).

relative abundances

Alpha Diversity

Chao1 Abundance-based estimator of species richness

unchanged

Simpson Estimator of species richness and species evenness: more weight on species evenness

increased