The vaginal microbiome is associated with endometrial cancer grade and histology/Experiment 1
From BugSigDB
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
- Vaginal fluid Vaginal discharge,Vaginal secretion,Vaginal fluid,vaginal fluid
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Uterine cancer CA - cancer of uterus,cancer of the uterus,cancer of uterus,malignant neoplasm of the uterus,malignant neoplasm of uterus,malignant tumor of the uterus,malignant tumor of uterus,malignant uterine neoplasm,malignant uterine tumor,malignant uterus neoplasm,neoplasm of uterus,tumour of uterus,uterine cancer,uterine tumor,uterus cancer,uterus neoplasm,Uterine cancer
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- HPV-negative group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- HPV- positive with persistent infection group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Women who showed persistent high-risk HPV infection across two or more consecutive visits.
- Group 1 sample size Number of subjects in the case (exposed) group
- 80
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 14 days
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Kruskall-Wallis
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
- Matched on Factors on which subjects have been matched on in a case-control study
- age, body mass index, race, sexual preference
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- antibiotic exposure, sexual preference
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: Figure 3
Description: significant changes in microbial taxa associated with HPV-positive and HPV-negative groups.
Abundance in Group 1: increased abundance in HPV- positive with persistent infection group
| NCBI | Quality Control | Links |
|---|---|---|
Revision editor(s): Prolific
