Microbial Diversity of Genital Ulcers of HSV-2 Seropositive Women/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-4-15
Subjects
- Location of subjects
- Kenya
- 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
- External female genitalia External female genital organ,External genitalia of female reproductive system,Female external genitalia,Organa genitalia feminina externa,External female genitalia,external female genitalia
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- HSV2 virologic severity measurement Herpes simplex virus-2 virologic severity measurement,HSV2 virologic severity measurement,hSV2 virologic severity measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Women with HSV-2 PCR- Negative Ulcers
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Women with HSV-2 PCR- Positive Ulcers
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients were classified as having genital ulcers if detected using polymerase chain reaction (PCR)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 21
- Group 1 sample size Number of subjects in the case (exposed) group
- 28
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- 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
- Kruskall-Wallis
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-4-15
Source: Table 4
Description: Differentially abundant bacterial taxa in women with HSV-2 PCR positive ulcers
Abundance in Group 1: increased abundance in Women with HSV-2 PCR- Positive Ulcers
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerococcus | ||
| Porphyromonas | ||
| Prevotella | ||
| Dialister |
Revision editor(s): Ese
