Patients With Reflux Esophagitis Possess a Possible Different Oral Microbiota Compared With Healthy Controls/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-8-18
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
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Peptic esophagitis Esophagitis (& [reflux]) or esophageal reflux,Esophagitis, Peptic,Peptic esophagitis,peptic esophagitis,peptic reflux disease,Peptic reflux disease (disorder),Reflux esophagitis,reflux esophagitis,Reflux oesophagitis,reflux oesophagitis
- 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
- reflux esophagus patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- symptoms such as heartburn and regurgitation were in accordance with the endoscopic criteria of Los Angeles Grade and taken no drugs as treatment
- Group 0 sample size Number of subjects in the control (unexposed) group
- 51
- Group 1 sample size Number of subjects in the case (exposed) group
- 55
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 6 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).
- 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
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-8-18
Source: Figure 3
Description: Bacterial taxa diversities between Reflux Esophigitis (RE) and healthy controls
Abundance in Group 1: increased abundance in reflux esophagus patients
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-8-18
Source: Figure 3
Description: Bacterial taxa diversities between Reflux Esophigitis (RE) and healthy controls
Abundance in Group 1: decreased abundance in reflux esophagus patients
