Summary of project PR000291
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000291. The data can be accessed directly via it's Project DOI: 10.21228/M8F600 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Project ID: | PR000291 |
| Project DOI: | doi: 10.21228/M8F600 |
| Project Title: | Microbiomic analysis in African American with Colonic Lesions |
| Project Type: | Microbiome |
| Project Summary: | Increasing evidence suggests a role in colorectal carcinogenesis to the gut microbiota. However, no specific bacteria have been unequivocally linked to either initiation or progression of colorectal cancer (CRC). A Microbiome analysis was conducted to analyze the microbiota composition and functional potential in African Americans with colorectal lesions with the goal of detecting markers of diagnostic value. DNA from 10 CRC tumors and their matched normal tissues as well as stool samples from 10 colon adenomas and 10 healthy subjects were analyzed for their bacterial composition and genomic content. 16S rDNA amplicons were analyzed by HITChip 16S microarray and by sequencing in stool samples and colon tissues, respectively. The functional potential was determined by sequence-based metagenomics using Illumina at a depth of 15 million reads per tissue sample to compensate for the host’s DNA presence. For the stools, the metagenomic sequencing was performed at 3 million reads per sample. Metagenomic Linkage Groups (MLGs) were established and those with high discriminative power between healthy and neoplastic specimens were analyzed for their genetic content. Also, metagenomic reads from stool samples were mapped against bacterial genes from tissues and reads from tissues were mapped against stools assembled bacterial genes to identify common markers with discriminative power. |
| Institute: | Howard University |
| Department: | Department of Pathology and Cancer Center |
| Last Name: | Brim |
| First Name: | Hassan |
| Address: | 2041 Georgia Avenue, N.W., Washington, DC 20060 |
| Email: | hbrim@howard.edu |
| Phone: | 202-806-4198 |
| Funding Source: | NIH |
Summary of all studies in project PR000291
| Study ID | Study Title | Species | Institute | Analysis(* : Contains Untargted data) | Release Date | Version | Samples | Download(* : Contains raw data) |
|---|---|---|---|---|---|---|---|---|
| ST000366 | Metabolomics analysis of colon adenoma in African Americans | Homo sapiens | University of North Carolina | NMR | 2017-07-10 | 1 | 20 | Uploaded data (5.7M)* |
