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-   -   Database of tumor-normal reads (http://seqanswers.com/forums/showthread.php?t=16213)

desmo 12-14-2011 07:17 AM

Database of tumor-normal reads
 
Hi everybody,
I've just started to work on cancer genomic (using ngs) and I would like to test some tools. Unfortunately right now I don't have any available reads.
Anyone knows where I can find some tumor-normal reads.
Thanks in advance.

adaptivegenome 12-14-2011 07:19 AM

Look up TCGA...

GenePool 03-27-2014 11:21 AM

Hi All,

We've included TCGA gene-level read counts as part of freely available reference library of genomics data in our product, GenePool. These counts were generated using the RNASeqV2 pipeline that leveraged RSEM. We've also taken the time to extract and curate the sample-level metadata and make it easily available to researchers to subset the samples, and analyze the data accordingly. For more advanced users, you can easily just export out the read counts and sample level metadata and get into more high-powered statistical analyses.

Incidentally, we've also included the isoform-, splice junction-, and exon-level counts into 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

We'd love to have your feedback on this effort.

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