Assessment of lower respiratory tract microbiota associated with pulmonary tuberculosis in children/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
- Sputum Expectoration,Sputum,sputum
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Pulmonary tuberculosis lung TB,lung tuberculosis,pulmonary TB,pulmonary tuberculosis,Tuberculosis, Pulmonary,Pulmonary tuberculosis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- clinical diagnosis (negative)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- bacteriologically confirmed TB (positive)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- children with active pulmonary TB (bacteriologically confirmed or clinically diagnosed)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 34
- Group 1 sample size Number of subjects in the case (exposed) group
- 51
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- not received antibiotics for a minimum of 3 months before the study.
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
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
Source: Figure 3D
Description: Association of respiratory microbiota with bacteriologically confirmed TB. (D) Identification of species with significant differences in abundance between the two groups using LEfSe (LDA effect size) analysis.
Abundance in Group 1: increased abundance in bacteriologically confirmed TB (positive)
| NCBI | Quality Control | Links |
|---|---|---|
| XanthomonadalesXanthomonadales | ||
| PaenibacillalesPaenibacillales | ||
| Paenibacillaceae | ||
| Paenibacillus |
Revision editor(s): Nuerteye
Signature 2
Source: Figure 3D
Description: Association of respiratory microbiota with bacteriologically confirmed TB. (D) Identification of species with significant differences in abundance between the two groups using LEfSe (LDA effect size) analysis.
Abundance in Group 1: decreased abundance in bacteriologically confirmed TB (positive)
Revision editor(s): Nuerteye
