THInCR - The HPV Induced Cancer Resource
THInCR - Correlation of Cellular Loci and Probe Methylation by HPV 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 HPV+, HPV- and normal control tissue from the TCGA cervical (CESC) and head & neck cancer (HNSC) cohorts. 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 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 HNSC and CESC cohorts was downloaded from the Broad Genome Data Analysis Centers Firehose server Link . HPV status was annotated as described in Gameiro et al, Viruses 2017 DOI: 10.3390/v9090252
Download the Differentially Methylated Probe (DMP) Analysis: Click Here
Video Guide: Click Here
Citing THInCR: Salnikov M, Gameiro SF, Zeng PYF, Barrett JW, Nichols AC, Mymryk JS. 2022. The HPV Induced Cancer Resource (THInCR): a Suite of Tools for Investigating HPV-Dependent Human Carcinogenesis. mSphere. 7(4): e0031722.
