Effects of prebiotics on immunologic indicators and intestinal microbiota structure in perioperative colorectal cancer patients/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/22
Curated date: 2022/09/03
Curator: Mary Bearkland
Revision editor(s): WikiWorks, Claregrieve1, Mary Bearkland, Victoria
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
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Nutraceutical , Colorectal cancer Dietary Supplement,Food Supplementation,Nutritional supplement,Nutraceutical,nutraceutical,cancer of colorectum,cancer of large bowel,cancer of large intestine,cancer of the large bowel,colon cancer,colorectal cancer,colorectum cancer,CRC,large intestine cancer,malignant colorectal neoplasm,malignant colorectal tumor,malignant colorectum neoplasm,malignant large bowel neoplasm,malignant large bowel tumor,malignant large intestine neoplasm,malignant large intestine tumor,malignant neoplasm of colorectum,malignant neoplasm of large bowel,malignant neoplasm of large intestine,malignant neoplasm of the large bowel,malignant neoplasm of the large intestine,malignant tumor of large bowel,malignant tumor of large intestine,malignant tumor of the large bowel,malignant tumor of the large intestine,Colorectal cancer
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- colorectal cancer patients non-prebiotic (preoperative)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- colorectal cancer patients non-prebiotic (postoperative)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients with radiologic and pathologic diagnosis of CRC who underwent radical resection (post-operative samples) and did not take prebiotics pre-surgery.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 20
- Group 1 sample size Number of subjects in the case (exposed) group
- 20
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- no treatment with antibiotics within 6 mo before surgery
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).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/22
Source: Table 5
Description: Differential microbial abundance between the pre- and postoperative timepoints in patients who did not take prebiotics
Abundance in Group 1: decreased abundance in colorectal cancer patients non-prebiotic (postoperative)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides |
Revision editor(s): Mary Bearkland, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/22
Source: Table 5
Description: Differential microbial abundance between the pre- and postoperative timepoints in patients who did not take prebiotics
Abundance in Group 1: increased abundance in colorectal cancer patients non-prebiotic (postoperative)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillus | ||
| Enterococcus | ||
| Lactococcus | ||
| Streptococcus |
Revision editor(s): Mary Bearkland, Claregrieve1
