A prospective study to examine the association of the urinary and fecal microbiota with prostate cancer diagnosis after transrectal biopsy of the prostate using 16sRNA gene analysis/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-6-26
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
- Urine Urine,urine
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Prostate cancer cancer of prostate gland,hereditary prostate cancer,malignant neoplasm of prostate,malignant neoplasm of prostate gland,malignant neoplasm of the prostate,malignant prostate gland neoplasm,malignant prostate neoplasm,malignant prostate tumor,malignant tumor of prostate,malignant tumor of the prostate,NGP - new growth of prostate,prostate cancer,prostate cancer, familial,prostate gland cancer,prostate neoplasm,prostatic cancer,prostatic neoplasm,tumor of the prostate,Prostate cancer
- 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
- prostate cancer patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- the association of urinary and fecal microbiota with prostate cancer diagnosis
- Group 0 sample size Number of subjects in the control (unexposed) group
- 16
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 28 days
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V5
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Statistical test
- Kruskall-Wallis
- 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
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-6-26
Source: Table 1, Text
Description: Significant differential OTU frequencies in urine samples of patients with or without prostate cancer
Abundance in Group 1: increased abundance in prostate cancer patients
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides |
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-6-26
Source: Table 1, text
Description: Significant differential OTU frequencies in urine samples of patients with or without prostate cancer
Abundance in Group 1: decreased abundance in prostate cancer patients
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium | ||
| Lachnospira | ||
| Acetanaerobacterium |
Revision editor(s): Atrayees
