Differential Microbial Signature Associated With Benign Prostatic Hyperplasia and Prostate Cancer/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-6-12
Subjects
- Location of subjects
- India
- 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
- Prostate gland Male prostate,Prostata,Prostate,Prostate gland,prostate gland
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Prostate carcinoma cancer of prostate,cancer of the prostate,carcinoma of prostate,carcinoma of prostate gland,carcinoma of the prostate,prostate cancer,prostate cancer, NOS,prostate carcinoma,prostate gland carcinoma,Prostate carcinoma
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Benign prostatic hyperplasia (BPH), Cohort-1 (Discovery Cohort)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Prostate Cancer (PCa), Cohort-1 (Discovery Cohort)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Patients who are diagnosed with Prostate Cancer (PCa)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 13
- Group 1 sample size Number of subjects in the case (exposed) group
- 33
- 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
- V2-V9
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-6-12
Source: Fig 2D, Supp. Fig 1E
Description: Differential Microbial Signature Associated With Benign Prostatic Hyperplasia versus Prostate Cancer.
Abundance in Group 1: increased abundance in Prostate Cancer (PCa), Cohort-1 (Discovery Cohort)
Revision editor(s): Ayibatari, Scholastica
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-6-12
Source: Fig 2D, Supp. Fig 1E
Description: Differential Microbial Signature Associated With Benign Prostatic Hyperplasia versus Prostate Cancer.
Abundance in Group 1: increased abundance in Prostate Cancer (PCa), Cohort-1 (Discovery Cohort)
Revision editor(s): Ayibatari, Scholastica
