Publicly available Rna-Seq count data
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7.8 years ago
Naim.Mahi ▴ 40

Dear Altruists,

I am looking for some sources that provides publicly available RNA-seq raw/processed count data for free download. Specifically, I am in need of some Illumina HiSeq produced data sets with roughly 100bp PE sequencing.

Please let me know if you have anything in mind.

TIA

RNA-Seq next-gen-sequencing • 4.0k views
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7.8 years ago
User 59 13k

I'm sure the SRA would oblige: http://www.ncbi.nlm.nih.gov/sra/?term=RNA-Seq

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Thank you :)

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7.8 years ago
Manvendra Singh ★ 2.2k

I think TCGA data would be good to start with,

https://tcga-data.nci.nih.gov/tcga/tcgaDownload.jsp

It has all formats of data, I think level 3 is RNA-seq

kindly check it once

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Thank you :)

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7.8 years ago
matted 7.7k

Check out the ReCount database. They state:

ReCount is an online resource consisting of RNA-seq gene count datasets built using the raw data from 18 different studies. ... The count tables, ExpressionSets, and phenotype tables are ready to use and freely available here. By taking care of several preprocessing steps and combining many datasets into one easily-accessible website, we make finding and analyzing RNA-seq data considerably more straightforward.

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Thank you. I checked their website earlier, but their data sets are quite old. My supervisor is not quite satisfied with these data sets :\

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