Tumor microbiome diversity influences papillary thyroid cancer invasion/Experiment 5
From BugSigDB
Needs review
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
- Thyroid gland Glandula thyroidea,Thyroid,Thyroid gland,thyroid gland
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Papillary thyroid carcinoma papillary cancer of the thyroid,papillary cancer of the thyroid gland,papillary cancer of thyroid,papillary cancer of thyroid gland,papillary carcinoma of the thyroid,papillary carcinoma of the thyroid gland,papillary carcinoma of thyroid,papillary carcinoma of thyroid gland,papillary thyroid cancer,papillary thyroid carcinoma,papillary thyroid gland carcinoma,thyroid gland papillary cancer,thyroid gland papillary carcinoma,thyroid papillary carcinoma,Papillary thyroid carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Patients with PTC at clinical stage T2
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Patients with PTC at clinical stage T3
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with Papillary thyroid cancer (PTC) at clinical stage T3.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 29
- Group 1 sample size Number of subjects in the case (exposed) group
- 10
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).
- arcsine square-root
- Statistical test
- Welch's 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
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
- decreased
- Richness Number of species
- unchanged
Signature 1
Needs review
Source: Figure 2f
Description: Microbiome alterations at the genus level in patients with PTC of clinical stages T1–T4. Intragroup differences were analyzed using the Kruskal–Wallis test, and differences between groups were analyzed based on the post-hoc test using Welch’s uncorrected test, adjusted by false discovery rate. The top three differential bacteria (genus) identified were tested individually.
Abundance in Group 1: decreased abundance in Patients with PTC at clinical stage T3
| NCBI | Quality Control | Links |
|---|---|---|
| Pseudomonas | ||
| Sphingomonas |
Revision editor(s): Aleru Divine
