Question: Rna-Sequencing For Nci-60 Data
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gravatar for pm2013
5.3 years ago by
pm201350
pm201350 wrote:

Hi I am trying to see if there is any publically available RNA-seq data for NCI-60 cell lines. I tried to browse for datasets but can only find microarray data for these cell lines. Is there such data available and if yes when can I can download the raw data for these (if possible). Any help would be appreciated.

Thanks

data tcga rna-seq • 3.2k views
ADD COMMENTlink modified 4 months ago by elmbeech70 • written 5.3 years ago by pm201350
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gravatar for miquelduranfrigola
5.3 years ago by
Barcelona
miquelduranfrigola760 wrote:

If I'm not wrong, this Cell paper includes RNA-seq data in the supplementary materials.

ADD COMMENTlink modified 5.3 years ago • written 5.3 years ago by miquelduranfrigola760

Thanks for your reply..but I think I found my answer. You can get access to the data through cghub.

ADD REPLYlink written 5.3 years ago by pm201350

Feel free to answer your own question and select your answer as the best :)

ADD REPLYlink written 5.3 years ago by Neilfws48k

I don't think that's the case. From Experimental Procedures: Comparison of Proteomics and Transcriptomics: Normalized gene expression data for NCI-60 cell lines were obtained from the Gene Expression Omnibus (series accession number GSE32474; Barrett et al., 2009; Pfister et al., 2009).

ADD REPLYlink written 5.3 years ago by David Quigley11k
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gravatar for Sebastian Boegel
4.1 years ago by
Germany
Sebastian Boegel460 wrote:

The Cell Reports paper mentioned above uses Microarray gene expression data.

I am also searching for NCI60 RNA-Seq data. cghub was mentioned in an answer above. In case of mean: https://cghub.ucsc.edu/datasets/data_sets.html, there is unfortunately no NCI60 RNA-Seq dataset to download. Or is the NCI60 contained in the CCLE dataset?

 

 

ADD COMMENTlink written 4.1 years ago by Sebastian Boegel460

You could check: http://www.broadinstitute.org/ccle/data/browseSamples

ADD REPLYlink written 4.1 years ago by David Quigley11k
0
gravatar for elmbeech
4 months ago by
elmbeech70
United States
elmbeech70 wrote:

this answer was deleted. there was a mix up in the cell line panel of interest.

ADD COMMENTlink modified 4 months ago • written 4 months ago by elmbeech70
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