Differences in the microbial profiles of early stage endometrial cancers between Black and White women/Experiment 3
From BugSigDB
Needs review
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
- Connective tissue Bindegewebe,Portion of connective tissue,Textus connectivus,Connective tissue,connective tissue
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Endometrial cancer cancer of endometrium,endometrial Ca,endometrial cancer,endometrial neoplasm,endometrium cancer,malignant endometrial neoplasm,malignant endometrium neoplasm,malignant neoplasm of endometrium,neoplasm of endometrium,primary malignant neoplasm of endometrium,tumor of endometrium,Endometrial cancer
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Obese White Women
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Obese Black Women
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Obese Black Women refers to the early stage endometrial tumors in black women with obesity.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 62
- Group 1 sample size Number of subjects in the case (exposed) group
- 19
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-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).
- log transformation
- Statistical test
- Metastats
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Needs review
Source: Fig. 3A
Description: Differentially abundant taxa between Obese white women and obese black women.
Abundance in Group 1: increased abundance in Obese Black Women
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillota | ||
| Cyanobacteriota | ||
| Candidatus Saccharibacteria |
Revision editor(s): KateRasheed
Signature 2
Needs review
Source: Fig. 3B
Description: Differentially abundant taxa between Obese white women and obese black women.
Abundance in Group 1: decreased abundance in Obese Black Women
| NCBI | Quality Control | Links |
|---|---|---|
| Dietzia | ||
| Geobacillus |
Revision editor(s): KateRasheed
