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Old 03-25-2014, 12:37 AM   #1
zhaopeihua
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Location: china

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Default TCGA mRNA data

hi,

I have downloaded some cancer level3 mRNA data from TCGA. Are there matched-normal tissue samples in data set ? or just cancer sample ?
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Old 03-25-2014, 07:07 AM   #2
TiborNagy
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As far as I know those are cancer samples only.
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Old 03-27-2014, 11:03 AM   #3
GenePool
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Hi,

There are actually adjacent normals available for a subset of patients per cohort that were profiled by RNA-Seq, while the DNA sequence variation data (genomes, exomes) is generated from matched tumor-normal pairs for the most part. You can easily browse and analyze all the level 3 mRNA data in GenePool's freely available genomics reference library which currently includes all of the RNA-SeqV2 gene-level counts along with curated sample metadata attached to the samples. I trust you'll find that GenePool makes the TCGA data and other large cohorts of genomics data + metadata easily approachable and usable by the research community.

For more information about 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

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Last edited by GenePool; 11-23-2014 at 10:06 PM.
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