Prospective observational study of vaginal microbiota pre- and post-rescue cervical cerclage/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- United Kingdom
- 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 cerclage Cervical Stitch,Tracheloplasty,Cervical Cerclage,Cervical cerclage,cervical cerclage
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Vaginal microbiome of asymptomatic women prior to cerclage
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Vaginal microbiome of symptomatic women prior ro cerclage
- Group 0 sample size Number of subjects in the control (unexposed) group
- 13
- Group 1 sample size Number of subjects in the case (exposed) group
- 7
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V2
- 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
- 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
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Figure 2
Description: Cladogram describing differentially abundant vaginal microbial clades and nodes observed between asymptomatic women and those with symptoms as identified using LEfSe analysis
Abundance in Group 1: increased abundance in Vaginal microbiome of symptomatic women prior ro cerclage
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus pseudopneumoniae | ||
| Prevotella disiens | ||
| Gardnerella vaginalis | ||
| Gardnerella |
Revision editor(s): WikiWorks
Signature 2
Needs review
Source: Figure 2
Description: Cladogram describing differentially abundant vaginal microbial clades and nodes observed between asymptomatic women and those with symptoms as identified using LEfSe analysis
Abundance in Group 1: decreased abundance in Vaginal microbiome of symptomatic women prior ro cerclage
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillus crispatus |
Revision editor(s): WikiWorks
