Kamil Slowikowski
About Archive

GTEx RNA-Seq Visualizations

I created three visualizations of RNA-Seq data from the GTEx project (version 2013-03-21). They’re powered by JBrowse, the WashU Epigenome Browser, and canvasXpress.

JBrowse Genome Browser

GTEx JBrowse IGF2

View expression of each coding nucleotide in the human genome (hg19).

A nucleotide’s expression level is the sum of Gencode v12 transcript RPKMs. The transcript levels were quantified by the GTEx team using Flux Capacitor. If you have RNA-Seq data, do not use Flux Capacitor. Instead, you should use RSEM or Cufflinks.

WashU Epigenome Browser

GTEx Wash U Epigenome Browser

View the expression of Gencode v12 transcripts across 23 human tissues.

Heatmap

GTEx heatmap IGF2

View expression of all Gencode v12 transcripts for a chosen gene.

(At some point, this broke and I haven’t had time to fix it.)