https://xenabrowser.net/heatmap/?bookmark=80d9c57b471b654cc569d4ceb44e6591 About The Transcript View shows transcript-specific expression or isoform percentage for 'tumor' TCGA data and 'normal' GTEX data. It allows you to compare the distribution of these values for two groups of samples. This tool was created by Akhil Kamath as part
If you want to run a hub that is accessible to others at your institute, you will want to download the jar file, here: https://genome-cancer.ucsc.edu/download/public/get-xena/ucscxena0220.tar.gz to your server host behind the firewall. The jar file is cavm-0.22.0-standalone.
We just published the python package, xenaPython, for accessing and pulling data from any of our Hubs. A big thank you to GiriB and souravsingh for their work on this project! Installation pip install xenaPython pip install --upgrade xenaPython Usage import xenaPython as xena xena.xenaAPI Example >
You can use Xena to view segmented copy number (CNV) data along a specific genomic region or an entire chromosome. Co-deletions in Lower Grade Glioma https://xenabrowser.net/heatmap/?bookmark=fdb3fa1573bc4f293281c6059e7ca702 For each of the three subtypes of TCGA Lower Grade Glioma, you can see corresponding deletions in
You can now view segmented copy number variation data in Xena! We have segmented CNV datasets for all TCGA cohorts, including Pan-Can, and ICGC cohorts too. Here are a few examples showing what you can do with this data: TMPRSS2-ERG Fusion in TCGA Prostate Cancer We can use