microRNA expression from TCGA

bsharmi · 10-15-2014, 08:06 AM

Hello,

I want to analyze the microRNA BRCA expression for certain patient IDs from TCGA data portal. I have downloaded the level 3 data using miRNAseq filter. But I am not sure how to process the data or get the expression data. I searched for one patient ID and downloaded mirna quantification and isoform quantification text files under the level 3 folder.
I searched in TCGA user guide but did not find or may have missed how to get expression values.
Can someone please help me?

Thanks so much!

P.S I found Expression-miRNA in https://wiki.nci.nih.gov/display/TCG...sSpecification, but I don't see a file in the download folder

GenePool · 11-22-2014, 03:12 AM

Hi,

We have made the Breast Cancer microRNA level 3 data freely available as part of a free preview of GenePool's premium content. This data is prepped and ready to analyze in GenePool.

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

Cheers!

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

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10-15-2014, 08:06 AM	#1
bsharmi Junior Member Location: Washington DC,US Join Date: Oct 2014 Posts: 1	microRNA expression from TCGA Hello, I want to analyze the microRNA BRCA expression for certain patient IDs from TCGA data portal. I have downloaded the level 3 data using miRNAseq filter. But I am not sure how to process the data or get the expression data. I searched for one patient ID and downloaded mirna quantification and isoform quantification text files under the level 3 folder. I searched in TCGA user guide but did not find or may have missed how to get expression values. Can someone please help me? Thanks so much! P.S I found Expression-miRNA in https://wiki.nci.nih.gov/display/TCG...sSpecification, but I don't see a file in the download folder Last edited by bsharmi; 10-15-2014 at 08:17 AM.

11-22-2014, 03:12 AM	#2
GenePool Registered Vendor Location: San Francisco, CA Join Date: Mar 2014 Posts: 18	Hi, We have made the Breast Cancer microRNA level 3 data freely available as part of a free preview of GenePool's premium content. This data is prepped and ready to analyze in GenePool. http://seqanswers.com/forums/showthread.php?t=48485 Cheers! ------------------------------ GenePool is making genomics data management, analysis, and sharing easier! Products @ www.stationxinc.com Last edited by GenePool; 11-23-2014 at 09:24 PM.