Question

Where can I find CCLE RNAseq BAM files?

2

Entering edit mode

8.3 years ago

vakul.mohanty ▴ 270

Hello,

I'm trying to find where the raw sequencing data from CCLE was relocated after cghub was decommissioned, any pointers will be really helpful.

Thanking You, Vakul

CCLE RNAseq • 7.0k views

ADD COMMENT • link updated 5.3 years ago by mghandi ▴ 20 • written 8.3 years ago by vakul.mohanty ▴ 270

0

Entering edit mode

Have you checked GDC legacy archive?

ADD REPLY • link 8.3 years ago by GenoMax 148k

0

Entering edit mode

Ya I looked into the GDC data portal including the legacy archive, which seems to have only TCGA and TARGET (unless I completely missed something).

ADD REPLY • link 8.3 years ago by vakul.mohanty ▴ 270

0

Entering edit mode

Email GDC support with this question. Sometimes new links for old data like this are impossible to find directly.

ADD REPLY • link 8.3 years ago by GenoMax 148k

0

Entering edit mode

Got a reply from them. They should be adding the CCLE dataset to their archive this month.

ADD REPLY • link 8.3 years ago by vakul.mohanty ▴ 270

0

Entering edit mode

I don't see this added yet. Any link or update yet?

ADD REPLY • link 6.9 years ago by mehran.karimzade ▴ 220

score 2 · Answer 1 · 2019-09-17

2

Entering edit mode

5.3 years ago

mghandi ▴ 20

Raw sequencing data are available at Sequence Read Archive (SRA) under accession number PRJNA523380