EBV-GCR - The EBV Gastric Cancer Resource
EBV-GCR - Correlation of Cellular Loci and Probe Methylation by EBV Status
Description: The purpose of this analysis is to compare genomic methylation across the loci of candidate cellular genes. Using this tool, researchers can easily investigate the available TCGA DNA methylation data at individual CpGs in relation to their precise genomic location, while identifying differences in DNA methylation between Epstein-Barr virus (EBV) positive, microsatellite-unstable/instability (MSI), chromosomal instability (CIN), genomically stable (GS), and mutant polymerase epsilon (POLE) tissue from the TCGA gastric carcinoma (GC) cohort. Select the candidate cellular gene by typing the name in the input box on the top right. The slider allows modification of the genomic region under investigation. Generated figures can be resized via dragging the right or bottom figure edges, or via the grey triangle in the bottom right edge of the figure. Images of graphs can be downloaded as a PNG file and a statistical analysis comparing relative methylation for all probes in the defined region is generated to allow 'at a glance' identification of probes demonstrating statistically significant methylation. Individual box plots comparing relative methylation for a given probe can be downloaded as PNG or PDF files and the information necessary to reproduce the box plots can be downloaded as a CSV file. Level 3 Infinium HumanMethylation450 BeadChip array data for the TCGA GC cohorts was downloaded from the Broad Genome Data Analysis Centers Firehose server Link .
Download the Differentially Methylated Probe (DMP) Analysis: Click Here
Video Guide: Click Here
Citing EBV-GCR: Salnikov MY, Wang E, Christensen E, Prusinkiewicz MA, Shooshtari P, Mymryk JS. The EBV Gastric Cancer Resource (EBV-GCR): A Suite of Tools for Investigating EBV-Associated Human Gastric Carcinogenesis. Viruses. 2023 Mar 27;15(4):853.
