Insights into estrogen impact in oral health & microbiome in COVID-19/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- Mexico
- 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
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- COVID-19 2019 novel coronavirus,2019 novel coronavirus infection,2019-nCoV,2019-nCoV infection,beta-CoV,beta-CoVs,betacoronavirus,coronavirus disease 2019,SARS-coronavirus 2,SARS-CoV-2,severe acute respiratory syndrome coronavirus 2,severe acute respiratory syndrome coronavirus 2 infectious disease,β-coronavirus,β-CoV,β-CoVs,COVID-19,cOVID-19
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- premenopausal women group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- postmenopausal women group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- postmenopausal women with COVID-19
- Group 0 sample size Number of subjects in the control (unexposed) group
- 20
- Group 1 sample size Number of subjects in the case (exposed) group
- 18
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 30 days
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
- DESeq2
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Source: Figure 3c
Description: DeSeq2 deferentially abundant taxa in premenopausal women compared to postmenopausal women group
Abundance in Group 1: decreased abundance in postmenopausal women group
| NCBI | Quality Control | Links |
|---|---|---|
| Alloprevotella | ||
| Haemophilus | ||
| Prevotella melaninogenica | ||
| Neisseria | ||
| Hoylesella nanceiensis |
Revision editor(s): EniolaAde
Signature 2
Source: Figure 3c
Description: DeSeq2 deferentially abundant taxa in premenopausal women compared to postmenopausal women group
Abundance in Group 1: increased abundance in postmenopausal women group
| NCBI | Quality Control | Links |
|---|---|---|
| Neisseria |
Revision editor(s): EniolaAde
