search

uci-cbcl / D-GEX

Deep learning for gene expression inference
GNU General Public License v2.0
147 stars 57 forks source link

The GTEx RNA-Seq expression data #1

Closed godisboy closed 8 years ago

godisboy commented 8 years ago

Hello, professor Li. Recently,I am doing a research in this filed. But,I can't find the the GTEx RNA-Seq expression data ----GTEx_RNASeq_RPKM_n2921x55993.gctx at GTEx Portal. I don,t know if this data---GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct.gz is appropriate?

yil8 commented 8 years ago

Hi

Thanks for you interest in our work. The GTEx data we used in our paper is a preliminary version before the official publication of GTEx, and I did not find it on the GTEx portal either. I will talk to our collaborators from Broad to see if I can release that version from my own. If that's not the case, I will work out a new version of this repository that based on the available version of GTEx on the GTEx portal. Please bare with me for a few days and thank you for pointing out this issue.

godisboy commented 8 years ago

Hi， professor Li. Thanks very much for your response！ I would like to see it in a few days.Maybe I can take a longer time to work out a matching version by myself. And I have another idea---can I use your frame to do a study on the relationship between snps and quantitative characters and predict the effects of snp gene expression? I will appreciate it very much if you can give some advice.

yil8 commented 8 years ago

Hi,

We can release the GTEx used for training but not through public download. Can you please email me (yil8@uci.edu) your basic information through a academic institute email? We can provide you the way to download the data.