Potential Association between Vaginal Microbiota and Cervical Carcinogenesis in Korean Women: A Cohort Study/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Curated date: 2021/03/19
Curator: Cynthia Anderson
Revision editor(s): Cynthia Anderson, WikiWorks, Atrayees
Subjects
- Location of subjects
- South Korea
- 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
- Vagina Vagina,vagina,Distal oviductal region,Distal portion of oviduct,Vaginae
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Cervical glandular intraepithelial neoplasia Cervical glandular intraepithelial neoplasia,cervical glandular intraepithelial neoplasia
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- CIN 2+
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with cervical intraepithelial neoplasia 2 or higher
- Group 0 sample size Number of subjects in the control (unexposed) group
- 7
- Group 1 sample size Number of subjects in the case (exposed) group
- 8
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 7
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
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 2A, 2B, 2F
Description: Comparative analysis of vaginal microbiota profiles
Abundance in Group 1: increased abundance in CIN 2+
| NCBI | Quality Control | Links |
|---|---|---|
| Gardnerella | ||
| Actinomycetota | ||
| Bacteroidota |
Revision editor(s): Cynthia Anderson, Atrayees
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Source: Figure 2A, 2B, 2F
Description: Comparative analysis of vaginal microbiota profiles
Abundance in Group 1: decreased abundance in CIN 2+
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillaceae | ||
| Lactobacillus | ||
| Bacilli | ||
| Lactobacillales |
Revision editor(s): Cynthia Anderson, Atrayees
