Cervicovaginal microbiome and natural history of Chlamydia trachomatis in adolescents and young women/Experiment 3
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
- Uterine cervix Canalis cervicis uteri,Caudal segment of uterus,Cervical canal,Cervical canal of uterus,Cervix,Cervix of uterus,Cervix uteri,Neck of uterus,Uterine cervix,uterine cervix
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Risk factor Factor, Risk,Factors, Risk,Risk Factors,Risk factor,risk factor
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Molecular Bacterial vaginosis (mBV B)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Molecular Bacterial vaginosis (mBV A)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Cervicovaginal microbiome community state types (CSTs) were generated using VALENCIA.30 To incorporate CST definitions into our mBV analysis we dichotomized mBV-positive (i.e., molBV 7-10 increased risk for CT infection) participants into mBV-A subtype if they concurrently had CST-IVA and molBV 7-10.
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).
- centered log-ratio
- Statistical test
- ANCOM
- 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
Signature 1
Source: Supplementary Figure 3
Description: Results of ANCOM analysis of differentially abundant genera associated with mBV-A and mBV-B groups.
Abundance in Group 1: increased abundance in Molecular Bacterial vaginosis (mBV A)
| NCBI | Quality Control | Links |
|---|---|---|
| Megasphaera | ||
| Moryella | ||
| Actinomyces | ||
| Porphyromonas | ||
| Ca. Lachnocurva vaginaeCa. Lachnocurva vaginae | ||
| Lachnospiraceae G-7Lachnospiraceae G-7 | ||
| Campylobacter | ||
| Adlercreutzia | ||
| Flavobacterium |
Revision editor(s): MyleeeA
Signature 2
Source: Supplementary Figure 3
Description: Results of ANCOM analysis of differentially abundant genera associated with mBV-A and mBV-B groups.
Abundance in Group 1: decreased abundance in Molecular Bacterial vaginosis (mBV A)
| NCBI | Quality Control | Links |
|---|---|---|
| Gemella | ||
| Atopobium | ||
| Anaerococcus | ||
| Aerococcus | ||
| Gardnerella |
Revision editor(s): MyleeeA
