Insights into estrogen impact in oral health & microbiome in COVID-19/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-6-21
Curated date: 2024/03/22
Curator: EniolaAde
Revision editor(s): WikiWorks, MyleeeA, Scholastica, Aleru Divine, Victoria, EniolaAde
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
- Health trait Health trait,health trait
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Adequate oral health group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Poor oral health group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- COVID-19 patients with poor oral health status. Patients were classified as having poor oral health when there were more than two caries, hygiene index higher than 2.5, gingival inflammation between 2–3 and bleeding when toothbrushing.
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
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).
- raw counts
- 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
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-6-21
Source: Figure 3f
Description: DESeq2 differentially abundant taxa in poor oral health group compared to adequate oral health group
Abundance in Group 1: increased abundance in Poor oral health group
| NCBI | Quality Control | Links |
|---|---|---|
| Neisseria perflava | ||
| unclassified Neisseria | ||
| Clostridia UCG-014Clostridia UCG-014 |
Revision editor(s): EniolaAde, Scholastica, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-6-21
Source: Figure 3f
Description: DESeq2 differentially abundant taxa in poor oral health group compared to adequate oral health group
Abundance in Group 1: decreased abundance in Poor oral health group
Revision editor(s): EniolaAde, Scholastica, WikiWorks
