Subgingival Microbiome of Gingivitis in Chinese Undergraduates/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Curated date: 2021/01/10
Curator: WikiWorks
Revision editor(s): Claregrieve1, WikiWorks, ChiomaBlessing
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
- Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Gingivitis acute gingivitis,chronic gingivitis,gingiva inflammation,gingivitis,inflammation of gingiva,Gingivitis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- gingivitis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with gingivitis
- Group 0 sample size Number of subjects in the control (unexposed) group
- 12
- Group 1 sample size Number of subjects in the case (exposed) group
- 54
- 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
- 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).
- centered log-ratio
- Statistical test
- ANOSIM
- 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
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Curated date: 2021/01/10
Curator: Marianthi Thomatos
Revision editor(s): Lwaldron, WikiWorks, ChiomaBlessing
Source: figure 3 and text
Description: Subgingival Microbiome of Gingivitis in Chinese undergraduates VS healthy controls
Abundance in Group 1: increased abundance in gingivitis
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidales genomosp. P1 | ||
| Bacteroidota | ||
| Porphyromonas | ||
| Porphyromonas endodontalis | ||
| Porphyromonas gingivalis | ||
| Prevotella intermedia | ||
| Spirochaetota | ||
| Tannerella | ||
| Treponema |
Revision editor(s): Lwaldron, WikiWorks, ChiomaBlessing
Signature 2
Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09
Source: figure 3 and text
Description: Subgingival Microbiome of Gingivitis in Chinese undergraduates VS healthy controls
Abundance in Group 1: decreased abundance in gingivitis
| NCBI | Quality Control | Links |
|---|---|---|
| Capnocytophaga |
Revision editor(s): WikiWorks, ChiomaBlessing
