Rare phylotypes in stone, stool, and urine microbiomes are associated with urinary stone disease/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Peace Sandy on 2024-2-26
Subjects
- 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
- Urine Urine,urine
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Urolithiasis calculus,kidney stone,urinary stones,urolithiasis,Urolithiasis
- 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
- urinary stone disease patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients with urinary stone disease
- Group 0 sample size Number of subjects in the control (unexposed) group
- 136
- Group 1 sample size Number of subjects in the case (exposed) group
- 201
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- TEST
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
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
Signature 1
Reviewed Marked as Reviewed by Peace Sandy on 2024-2-26
Source: Figure 7
Description: Bubble plot showing the fold change of differentially abundant rare (B) taxa associated with health disparities (control and USD phenotypes) in urine samples.
Abundance in Group 1: increased abundance in urinary stone disease patients
Revision editor(s): Joju
