Differences in salivary microbiome among children with tonsillar hypertrophy and/or adenoid hypertrophy/Experiment 2
From BugSigDB
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
- Hypertrophy Hypertrophy,hypertrophy
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Adenotonsillar hypertrophy (ATH)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Salivary microbial profile in children with adenotonsillar hypertrophy (ATH)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 22
- 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)
- 3 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)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2.0
- Matched on Factors on which subjects have been matched on in a case-control study
- age
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Richness Number of species
- unchanged
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- unchanged
Signature 1
Source: FIG 2 (A)
Description: Linear discriminant analysis (LDA) scores showing significant taxonomic differences among the adenotonsillar hypertrophy (ATH) group and control groups.
Abundance in Group 1: increased abundance in Adenotonsillar hypertrophy (ATH)
| NCBI | Quality Control | Links |
|---|---|---|
| Atopobiaceae | ||
| Lancefieldella | ||
| Segatella salivae | ||
| Veillonella A atypicaVeillonella A atypica | ||
| Lancefieldella sp000564995Lancefieldella sp000564995 | ||
| Megasphaera micronuciformis |
Signature 2
Source: FIG 2 (A)
Description: Linear discriminant analysis (LDA) scores showing significant taxonomic differences among the adenotonsillar hypertrophy (ATH) group and control groups.
Abundance in Group 1: decreased abundance in Adenotonsillar hypertrophy (ATH)
| NCBI | Quality Control | Links |
|---|---|---|
| Centipeda periodontii | ||
| Segatella oulorum | ||
| Hoylesella loescheii | ||
| Lachnoanaerobaculum saburreum |
Revision editor(s): Rahila
