Relationships between the Microbiome and Response to Neoadjuvant Chemoradiotherapy in Locally Advanced Rectal Cancer/Experiment 4
From BugSigDB
Needs review
Subjects
- Location of subjects
- South Korea
- 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
- Rectum Intestinum rectum,Rectal sac,Terminal portion of intestine,Terminal portion of large intestine,Rectum,rectum
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Response to platinum-based neoadjuvant chemotherapy Response to platinum-based neoadjuvant chemotherapy,response to platinum-based neoadjuvant chemotherapy
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Pre-nCRT (Pre-neoadjuvant chemoradiotherapy) Non-responders
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Pre-nCRT (Pre-neoadjuvant chemoradiotherapy) Responders
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pre-nCRT (Pre-neoadjuvant chemoradiotherapy) samples from patients with locally advanced rectal cancer who were later classified as responders to neoadjuvant chemoradiotherapy (TRG 0–1).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 17
- Group 1 sample size Number of subjects in the case (exposed) group
- 9
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month
Lab analysis
- 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
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- 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
Signature 1
Needs review
Source: Figure 3B and 3C
Description: Heatmap of pre-nCRT microbiome composition at family level and Relative abundance of four major butyrate-producing genera. R, responder; NR, non-responder
Abundance in Group 1: increased abundance in Pre-nCRT (Pre-neoadjuvant chemoradiotherapy) Responders
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium | ||
| Lachnospira | ||
| Lachnospiraceae | ||
| Oscillospiraceae | ||
| Roseburia | ||
| Ruminococcus |
Revision editor(s): Tosin, Anne-mariesharp
