Live examples

Live Examples of what types of visualizations and analyses you can perform using UCSC Xena

Workshop cheatsheet/handout

https://xenabrowser.net/heatmap/?bookmark=bc7f3f46b042bcf5c099439c2816ff01

https://xenabrowser.net/heatmap/?bookmark=3f4b3fa8901f4c24f5f791e036566424

https://xenabrowser.net/heatmap/?bookmark=2dc4735dd97964b7c2a57afe053a9764

https://xenabrowser.net/heatmap/?bookmark=cd6d8adead7d720fea7df197dc807147

https://xenabrowser.net/heatmap/?bookmark=ff06e17b50faa9ec3045ab174dd19907

https://xenabrowser.net/heatmap/?bookmark=6451afae2ee964475a2eb9c79d46900c

https://xenabrowser.net/heatmap/?bookmark=0f9954a525987445ba7faef1e2081027

https://xenabrowser.net/heatmap/?bookmark=27d8bc5b7904f768374a1eeae9baed81

Xena mutation views supports examination of both coding and non-coding mutations from whole genome analysis. We support viewing mutations from both gene- or coordinate- centric perspective. In the gene-centric view, you can dynamically toggle to show or hide introns from the view. This figure shows the frequent intron mutations in 321 samples from the ICGC lymphoma cohorts. These 'pile-ups' would be not be visible if viewing mutations only in the exome. These intron mutations overlap with known enhancers regions (Mathelier 2015).‌

Mathelier A, Lefebvre C, Zhang AW, Arenillas DJ, Ding J, Wasserman WW, Shah SP. Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas Genome Biology. 2015; 16:84.

https://xenabrowser.net/?bookmark=7deeea053f221ba9fc506be855f353ac