Postmenopause as a key factor in the composition of the Endometrial Cancer Microbiome (ECbiome)/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29
Subjects
- Location of subjects
- United States of America
- 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
- Lower part of vagina Caudal vagina,Lower third of vagina,Lower vagina,Perineal part of vagina,Sinus vagina,Vagina lower part,Vaginal bulb,Lower part of vagina,lower part of vagina
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Postmenopausal Postmenopausal,postmenopausal
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Pre-menopausal patients
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Post-menopausal patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Post-menopausal patients without Endometrial cancer
- Group 0 sample size Number of subjects in the control (unexposed) group
- 49
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
- 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-V5
- 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
- Wald Test
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- obesity, vaginal pH
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Richness Number of species
- increased
Signature 2
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29
Source: Figure 2 + Table S1
Description: Bacterial OTUs differentially enriched among Post-menopausal patients without endometrial cancer compared to Pre-menopausal patients
Abundance in Group 1: increased abundance in Post-menopausal patients
Revision editor(s): WikiWorks, ChiomaBlessing
