Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized/Experiment 3
From BugSigDB
Subjects
- Location of subjects
- Nepal
- 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
- Lifestyle measurement Lifestyle measurement,lifestyle measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-smokers
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Smokers
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Individuals engaged in smoking
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Current antibiotic use
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- 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
- T-Test
- 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
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, sex
Signature 1
Source: S11A
Description: Differentially abundant taxa between smokers and Non-smokers group
Abundance in Group 1: increased abundance in Smokers
| NCBI | Quality Control | Links |
|---|---|---|
| Atopobium |
Revision editor(s): Tosin
Signature 2
Source: Figure S11A
Description: Differentially abundant taxa between smokers and Non-smokers group.
Abundance in Group 1: decreased abundance in Smokers
| NCBI | Quality Control | Links |
|---|---|---|
| Granulicatella | ||
| unclassified Porphyromonadaceae | ||
| Neisseria |
Revision editor(s): Tosin
