Integrated analysis of TCGA methylation and RNA-Seq data.
This movie shows an example of integrated analysis of TCGA methylation and gene expression data. This is subsequent to "Importing and analyzing TCGA methylation data," which we extracted hyper-methylated sites in tumor.
And this video shows how to extract genes which have hyper-methylated sites in their upstream regions, and are suppressed. It shows the alteration of methylation status can largely affect the expression patterns of genes in their donwstream.
There is another tutorial of integrating TCGA PRAD methylation and RNA-Seq data. The import process of TCGA data becomes much easier in Subio Platform v1.20.5031 than former versions. So please refer the operations of import data in this tutorial.
View Data on Subrium and Download SSA FileGo Subrium
Analyzing a large data set requires large memory (RAM) on the computer. If memory error often happens, you need to add RAM physically though, there are workarounds to handle with a limited memory.