TCGA RNA-Seq Data

Shahenda · 03-24-2014, 06:45 AM

For any one familiar with RNA-Seq data from TCGA. Are there any control samples included in level3 data. From what I understand from the sample identifier (TCGA-06-0673-11) the last number 11 is for normal tissue and I can't find any samples for RNA-seq.

GenePool · 03-27-2014, 10:45 AM

Hi Shahenda,

Yes there are a number of normal-adjacent samples available for the RNA-Seq. In fact, you can freely browse and analyze the RNA-SeqV2 (level 3) gene-level data in GenePool by taking advantage of the growing genomics reference library available to everyone. It also includes sample-level metadata curated by folks at Station X to make it easy to find the samples you are interested in analyzing.

Incidentally, we've also included the isoform-, splice-junction-, and exon-level counts in GenePool's premium content.

If you're interested in learning more, please check out GenePool's growing genomics library, check out the following threads:

http://seqanswers.com/forums/showthread.php?t=42471
http://seqanswers.com/forums/showthread.php?t=48485

Please feel free to contact us directly if you have any questions!

------------------------------
GenePool is making genomics data management, analysis, and sharing easier!
www.stationxinc.com

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03-24-2014, 06:45 AM	#1
Shahenda Junior Member Location: Cairo Join Date: Mar 2014 Posts: 1	TCGA RNA-Seq Data For any one familiar with RNA-Seq data from TCGA. Are there any control samples included in level3 data. From what I understand from the sample identifier (TCGA-06-0673-11) the last number 11 is for normal tissue and I can't find any samples for RNA-seq.

03-27-2014, 10:45 AM	#2
GenePool Registered Vendor Location: San Francisco, CA Join Date: Mar 2014 Posts: 18	Hi Shahenda, Yes there are a number of normal-adjacent samples available for the RNA-Seq. In fact, you can freely browse and analyze the RNA-SeqV2 (level 3) gene-level data in GenePool by taking advantage of the growing genomics reference library available to everyone. It also includes sample-level metadata curated by folks at Station X to make it easy to find the samples you are interested in analyzing. Incidentally, we've also included the isoform-, splice-junction-, and exon-level counts in GenePool's premium content. If you're interested in learning more, please check out GenePool's growing genomics library, check out the following threads: http://seqanswers.com/forums/showthread.php?t=42471 http://seqanswers.com/forums/showthread.php?t=48485 Please feel free to contact us directly if you have any questions! ------------------------------ GenePool is making genomics data management, analysis, and sharing easier! www.stationxinc.com Last edited by GenePool; 11-23-2014 at 10:42 PM.