Association of Bitter Taste Receptor T2R38 Polymorphisms, Oral Microbiota, and Rheumatoid Arthritis/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-1-18
Subjects
- Location of subjects
- Canada
- 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
- Internal cheek pouch Internal buccal pouch,Internal cheek pouch,internal cheek pouch
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Sensory perception of bitter taste bitter taste perception,bitter taste sensitivity,Sensory perception of bitter taste,sensory perception of bitter taste
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- rheumatoid arthritis patients carrying the AVI/AVI genotype (“non-tasters”)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 16
- Group 1 sample size Number of subjects in the case (exposed) group
- 35
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- N/A
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
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-1-18
Source: Figure 4(a)
Description: Most highly differentially abundant bacteria in RA patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE
Abundance in Group 1: decreased abundance in rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
| NCBI | Quality Control | Links |
|---|---|---|
| Campylobacter rectus | ||
| Selenomonas artemidis | ||
| Corynebacterium durum | ||
| Capnocytophaga sputigena | ||
| Candidatus Absconditabacteria bacterium | ||
| Leptotrichia sp. |
Revision editor(s): Atrayees
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-1-18
Source: Figure 4(b)
Description: Most highly differentially abundant bacteria in RA patients in buccal swab samples from participants with the homozygous AVI/AVI and PAV/PAV TAS2R38 genotypes by the LEfSE
Abundance in Group 1: increased abundance in rheumatoid arthritis patients with the homozygous PAV/PAV (“supertasters”)
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus salivarius |
Revision editor(s): Atrayees
