Availability of sequence reads for CCLE RRBS data

Q&A
1

Dear DepMap community,

We are seeking raw RRBS data (short sequence reads) for the CCLE dataset. These data were described in the publication by Ghandi et al. in Nature, 2019 (Next-generation characterization of the Cancer Cell Line Encyclopedia). I can find the processed counts (different derived measures near TSS and CpG clusters) on the DepMap data download page, but we need raw data for our analysis. Could you please let me know where I can download the sequence reads for the CCLE RRBS dataset?
Thank you for your suggestions.

Sincerely,
Julia Krushkal

julia.krushkal@nih.gov
National Cancer Institute

2

Hello,

This data should be available on the SRA website. See Accessing raw sequencing data for more information.

Thanks,
Phil