This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Public Rnaseq/Dnaseq Data

Hi,

I understand this might be a long shot, but : is anybody aware of a public dataset which contains RNAseq and DNAseq performed on the same individual?

rna-seq
• 5,635 views • link
updated by Sander Timmer Sander Timmer • written by xenophiliuslovegood • xenophiliuslovegood

Just for my knowledge, what do you refer to as 'dnaseq'!

• 0 views • link
written by Sukhi Singh Sukhi Singh

with "DNAseq data" I refer to reads produced by sequencing a molecule of DNA.

• 0 views • link
written by xenophiliuslovegood • xenophiliuslovegood

normally people would just call that sequencing or if you're just interesting in the variation (like SNPs) genotyping.

• 0 views • link
written by Sander Timmer Sander Timmer

That clears, this is what I had in mind, dnaseq is just the normal dna sequencing, I thought it might be a some variation of chip-seq as it was used in the context of rna-seq

Cheers

• 0 views • link
written by Sukhi Singh Sukhi Singh

1 answer

This recent paper in Nature they have RNA-seq and DNase-seq for 70 YRI lines that are also part of the HapMap (and most 1000 genomes) LCLs.

http://www.nature.com/nature/journal/v482/n7385/full/nature10808.html

Data from this paper can be found here: http://eqtl.uchicago.edu/Home.html

/edit, if I understand your second command you mean genotype data + RNA-seq data only? then for 60 CEU lines you can obtain RNA-seq data here: http://funpopgen.unige.ch/data/ceu60

These lines are again HapMap/1000 Genomes LCLs.

• 0 views • link
written by Sander Timmer Sander Timmer

Log in to answer this question.

More posts like this