Associations Between Endometriosis and Gut Microbiota/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/08/31
Curated date: 2021/08/11
Curator: Samara.Khan
Revision editor(s): WikiWorks, Claregrieve1, Samara.Khan, Peace Sandy
Subjects
- Location of subjects
- Sweden
- 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
- Endometriosis endometriosis,Endometriosis (clinical),endometriosis (disease),Endometriosis (disorder),Endometriosis (morphologic abnormality),ENDOMETRIOSIS NEC,Endometriosis NOS,Endometriosis NOS (disorder),Endometriosis of other specified sites,Endometriosis, site unspecified,Endometriosis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy controls taken from a larger cohort study
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Endometriosis patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with a diagnosis of endometriosis, confirmed by laparoscopy or laparotomy.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 198
- Group 1 sample size Number of subjects in the case (exposed) group
- 66
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V3
- 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)?
- Yes
- Matched on Factors on which subjects have been matched on in a case-control study
- age, body mass index, sex, smoking status
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/08/31
Curated date: 2021/08/11
Curator: Samara.Khan
Revision editor(s): Samara.Khan, Claregrieve1, Folakunmi
Source: Table 2
Description: The following taxa were decreased among those with endometriosis compared to healthy controls.
Abundance in Group 1: decreased abundance in Endometriosis patients
| NCBI | Quality Control | Links |
|---|---|---|
| Adlercreutzia | ||
| Bacteroidales | ||
| Barnesiellaceae | ||
| Coriobacteriaceae | ||
| Halanaerobiaceae | ||
| Lachnospira | ||
| Paraprevotella | ||
| Turicibacter |
Revision editor(s): Samara.Khan, Claregrieve1, Folakunmi
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/08/31
Source: Table 2
Description: The following taxa were increased among those with endometriosis compared to healthy controls after a false-discovery rate adjustment
Abundance in Group 1: increased abundance in Endometriosis patients
| NCBI | Quality Control | Links |
|---|---|---|
| Oscillospira | ||
| Bacteroides | ||
| Parabacteroides | ||
| Enterobacteriaceae | ||
| Coprococcus | ||
| Lachnospiraceae |
Revision editor(s): Samara.Khan, Claregrieve1
