Fusobacterium nucleatum and T Cells in Colorectal Carcinoma/Experiment 1

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Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/31

Curated date: 2022/06/11

Curator: Jeshudy

Revision editor(s): WikiWorks, Claregrieve1, Jeshudy, Peace Sandy

Subjects

Location of subjects
United States of America
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
Intestine Bowel,Intestinal tract,Intestine,intestine
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Colorectal cancer 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
Tumor Tissue of Colorectal Cancer Cases
Group 1 name Corresponds to the case (exposed) group for case-control studies
Adjacent Non-Tumor Tissue of Colorectal Cancer Cases
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Both colon and rectal carcinomas were included on the basis of the colorectal continuum model. Patients were followed up until death or the end of follow-up.
Group 0 sample size Number of subjects in the control (unexposed) group
558
Group 1 sample size Number of subjects in the case (exposed) group
558
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
None

Lab analysis

Sequencing type
16S
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
RT-qPCR

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)?
Yes
Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
age, family history of cancer, sex, Confounders controlled for: "year of diagnosis" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.year of diagnosis


Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/31

Curated date: 2022/06/12

Curator: Jeshudy

Revision editor(s): Jeshudy, Claregrieve1

Source: Figure 1B

Description: Differential abundance of Fusobacterium nucleatum in 558 pairs of colorectal carcinoma and adjacent non-tumor tissues

Abundance in Group 1: increased abundance in Adjacent Non-Tumor Tissue of Colorectal Cancer Cases

NCBI Quality ControlLinks
Fusobacterium nucleatum

Revision editor(s): Jeshudy, Claregrieve1