External Data Integration Module

This module allows for integration of mRNA, miRNA, and methylation analysis results (e.g. Gene lists) to identify genomic hotspot regions. It calculates for each region a p-value, using the Fisher’s Exact test, indicating the probability of observing so many genes in an aberrant region given the total number of imported differentially regulated genes and number of genes in the genome. For each region in any results table, the P-value for having an unexpectedly high number or differentially regulated genes, miRNA, or methylated genes, in a region is reported thus allowing rapid identification of genomic hotspots where copy number changes are correlated with mRNA, miRNA, or Methylation changes.


Sample aberration frequency plot, top panel, and tracks of external gene lists, for gene expression, on the bottom (blue tick marks indicate significantly up-regulated genes, magenta tick marks, significantly down-regulated).