Microbiota in the Throat and Risk Factors for Laryngeal Carcinoma/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2021/07/16
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
- Throat Gula,Throat,throat
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Squamous cell carcinoma carcinoma, squamous cell, malignant,epidermoid carcinoma,epidermoid cell cancer,malignant epidermoid cell neoplasm,malignant epidermoid cell tumor,malignant squamous cell neoplasm,malignant squamous cell tumor,squamous carcinoma,squamous cell cancer,squamous cell carcinoma,squamous cell carcinoma (morphologic abnormality),squamous cell carcinoma NOS (morphologic abnormality),squamous cell epithelioma,Squamous cell carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- laryngeal squamous cell carcinoma (LSCC)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- histopathological confirmation of Laryngeal squamous cell carcinoma and underwent total laryngectomy
- Group 0 sample size Number of subjects in the control (unexposed) group
- 28
- Group 1 sample size Number of subjects in the case (exposed) group
- 27
- 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
- V1-V2
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Roche454
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- raw counts
- Statistical test
- T-Test
- 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
Signature 1
Reviewed Marked as Reviewed by Rimsha Azhar on 2021/02/09
Source: Table 2, Text, Supplementary Table S2
Description: Differences in bacterial communities in the throats of LSCC patients and control subjects
Abundance in Group 1: increased abundance in laryngeal squamous cell carcinoma (LSCC)
| NCBI | Quality Control | Links |
|---|---|---|
| Fusobacterium | ||
| Prevotella | ||
| Parvimonas | ||
| Peptostreptococcus | ||
| Dialister | ||
| Catonella | ||
| Selenomonas | ||
| Treponema | ||
| Burkholderia | ||
| Peptostreptococcaceae |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Rimsha Azhar on 2021/02/09
Source: Table 2, Text, Supplementary Table S2
Description: Differences in bacterial communities in the throats of LSCC patients and control subjects
Abundance in Group 1: decreased abundance in laryngeal squamous cell carcinoma (LSCC)
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus | ||
| Rothia |
Revision editor(s): WikiWorks
