Characterization of the Gut and Skin Microbiome over Time in Young Children with IgE-Mediated Food Allergy/Experiment 6
From BugSigDB
Needs review
Subjects
- Location of subjects
- Switzerland
- 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
- Skin of forearm Forearm skin,Lower arm skin,Lower segment of arm skin,Skin of antebrachial region,Skin of lower arm,Skin of lower segment of arm,Skin of zeugopod of arm,Skin of forearm,skin of forearm
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Food allergy Food Hypersensitivity,Food intolerance,Food allergy,food allergy
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Patients at enrollment (t0)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Patients at follow-up (t1)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Children with Immunoglobulin-E (IgE)-mediated food allergy (FA) at follow-up (denoted by t1).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 23
- Group 1 sample size Number of subjects in the case (exposed) group
- 21
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V2
- 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).
- arcsine square-root
- Statistical test
- MaAsLin2
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Needs review
Source: Figure 2D
Description: Violin plot showing differences in genus abundances in forearm samples at different sampling time points (at enrollment (t0), and follow-up (t1)).
Abundance in Group 1: increased abundance in Patients at follow-up (t1)
| NCBI | Quality Control | Links |
|---|---|---|
| Abiotrophia | ||
| Actinomyces | ||
| Arachnia | ||
| Kingella | ||
| Knoellia | ||
| Lautropia | ||
| Neisseria |
Revision editor(s): Aleru Divine
Signature 2
Needs review
Source: Figure 2D
Description: Violin plot showing differences in genus abundances in forearm samples at different sampling time points (at enrollment (t0), and follow-up (t1)).
Abundance in Group 1: decreased abundance in Patients at follow-up (t1)
| NCBI | Quality Control | Links |
|---|---|---|
| Pseudoxanthomonas |
Revision editor(s): Aleru Divine
