Analysis of Conjunctival Sac Microbiome in Dry Eye Patients With and Without Sjögren's Syndrome/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Peace Sandy on 2024-1-29
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
- Conjunctival sac Conjunctiva serous sac,Subbrillar sac,Conjunctival sac,conjunctival sac
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Dry eye syndrome dry eye,Dry Eye Syndrome,dry eye syndrome,Dry Eye Syndromes,dry eye(s),eye(s), dry,KCS,Keraconjunctivitis sicca,Keratoconjunctivitis Sicca,Keratoconjunctivitis sicca,keratoconjunctivitis sicca,Keratoconjunctivitis sicca (disorder),sicca, keratoconjunctivitis,Tear film insufficiency,tear film insufficiency,Dry eye syndrome
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Normal Control (NC)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Sjogrens Syndrome Dry Eye (SSDE)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with Sjogrens Syndrome Dry Eye
- Group 0 sample size Number of subjects in the control (unexposed) group
- 39
- Group 1 sample size Number of subjects in the case (exposed) group
- 23
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Application of antibiotic or immunomodulatory eyedrops in the previous 4 weeks,
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
- ANOVA
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Peace Sandy on 2024-1-29
Source: Tables 3 and 4
Description: TABLE 3 Percentage of the top five phyla in each group. TABLE 4 Percentage of the top five genus in each group.
Abundance in Group 1: increased abundance in Sjogrens Syndrome Dry Eye (SSDE)
| NCBI | Quality Control | Links |
|---|---|---|
| Acinetobacter | ||
| Clostridium | ||
| Corynebacterium | ||
| Bacillota |
Revision editor(s): Mary Bearkland, Peace Sandy
Signature 2
Reviewed Marked as Reviewed by Peace Sandy on 2024-1-29
Source: Tables 3 and 4
Description: TABLE 3 Percentage of the top five phyla in each group. TABLE 4 Percentage of the top five genus in each group.
Abundance in Group 1: decreased abundance in Sjogrens Syndrome Dry Eye (SSDE)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillus | ||
| Bacteroidota | ||
| Cyanobacteriota | ||
| Pseudomonadota |
Revision editor(s): Mary Bearkland, Peace Sandy
