The direct and indirect association of cervical microbiota with the risk of cervical intraepithelial neoplasia/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Subjects
- Location of subjects
- China
- 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
- Uterus Uterus,uterus
- 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
- Cervical Intraepithelial Neoplasis -1
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Cervical Intraepithelial Neoplasis +2
- Group 0 sample size Number of subjects in the control (unexposed) group
- 126
- Group 1 sample size Number of subjects in the case (exposed) group
- 40
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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
- 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)?
- Yes
- 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
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Figure 4
Description: LEfSe showing the differences in the 18 most abundant species according to Cervical Intraepithelial Neoplasia (CIN) status
Abundance in Group 1: increased abundance in Cervical Intraepithelial Neoplasis +2
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillus crispatus | ||
| Bacteroides fragilis | ||
| Streptococcus agalactiae | ||
| Campylobacter ureolyticus |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: Figure 4
Description: LEfSe showing the differences in the 18 most abundant species according to Cervical Intraepithelial Neoplasia (CIN) status
Abundance in Group 1: decreased abundance in Cervical Intraepithelial Neoplasis +2
| NCBI | Quality Control | Links |
|---|---|---|
| Photobacterium damselae | ||
| Lactobacillus jensenii | ||
| Fannyhessea vaginae |
Revision editor(s): WikiWorks
