Long-term benefit of DAAs on gut dysbiosis and microbial translocation in HCV-infected patients with and without HIV coinfection/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-9-13
Curated date: 2024/04/02
Curator: Scholastica
Revision editor(s): WikiWorks, Scholastica, Idiaru angela, Tosin
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
- Baseline - SVR
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Follow-up at week 72 (FUw72) -SVR
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients at week 72 after treatment completion who achieved sustained virological response (SVR)
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 2 weeks
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
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-9-13
Source: Table 2
Description: Significant taxa (≥ 1%) at genus levels in patients with SVR
Abundance in Group 1: increased abundance in Follow-up at week 72 (FUw72) -SVR
Revision editor(s): Scholastica, WikiWorks, Tosin
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-9-13
Source: Table 2
Description: Significant taxa (≥ 1%) at genus levels in patients with SVR
Abundance in Group 1: decreased abundance in Follow-up at week 72 (FUw72) -SVR
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides | ||
| Lachnoclostridium | ||
| Lachnospira | ||
| Sutterella | ||
| Lachnospira eligens |
Revision editor(s): Scholastica, WikiWorks, Tosin
