Changes of saliva microbiota in nasopharyngeal carcinoma patients under chemoradiation therapy/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-1-9
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
- Nasopharyngeal squamous cell carcinoma nasopharyngeal squamous cell carcinoma,Nasopharyngeal squamous cell carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Nasopharyngeal carcinoma patients at baseline
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Nasopharyngeal carcinoma patients after treatment
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients who have received treatment after 7 or 12 months
- Group 0 sample size Number of subjects in the control (unexposed) group
- 3
- Group 1 sample size Number of subjects in the case (exposed) group
- 3
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 30 days
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V3
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Roche454
Statistical Analysis
- Statistical test
- Metastats
- 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
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-1-9
Source: Figure 3 and within results text (under taxonomy-based characterisation of saliva microbiota, paragraph 4)
Description: Alteration of saliva microbiota between pretreatment (CB) and post-treatment (CA1 or CA2) in each patient.
Abundance in Group 1: increased abundance in Nasopharyngeal carcinoma patients after treatment
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus | ||
| Veillonella |
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-1-9
Source: Figure 3 and within results text (under taxonomy-based characterisation of saliva microbiota, paragraph 4)
Description: Alteration of saliva microbiota between pretreatment (CB) and post-treatment (CA1 or CA2) in each patient.
Abundance in Group 1: decreased abundance in Nasopharyngeal carcinoma patients after treatment
| NCBI | Quality Control | Links |
|---|---|---|
| Neisseria | ||
| Prevotella |
