Where can I download chromatin state genomic co-ordinates of C.elegans ?

1

Entering edit mode

9.5 years ago

biorepine ★ 1.5k

I tried http://intermine.modencode.org to download chromatin state genomic co-ordinates of C.elegans reported in the paper http://www.ncbi.nlm.nih.gov/pubmed/21177976. All I found was Chip-Seq data but not chromatin states. Any suggestions? Thanx in advance

c.elegans chromatin-states • 2.5k views

ADD COMMENT • link updated 13 months ago by Ram 43k • written 9.5 years ago by biorepine ★ 1.5k

0

Entering edit mode

What sort of data are you looking for if not ChIPseq? Have you tried searching SRA?

ADD REPLY • link updated 3.1 years ago by Ram 43k • written 9.5 years ago by Devon Ryan 104k

0

Entering edit mode

Chromatin states are the regions *( in BED format) enriched with combinatorial histone ChIP-Seq marks. These sets were available for drosophila at modENCODE but not for C.elegans.

ADD REPLY • link updated 3.1 years ago by Ram 43k • written 9.5 years ago by biorepine ★ 1.5k

0

Entering edit mode

Right, so you want to call peaks and intersect/overlap them then.

ADD REPLY • link updated 3.1 years ago by Ram 43k • written 9.5 years ago by Devon Ryan 104k

0

Entering edit mode

They are feasible but I am just looking for the data that they already published. :)

ADD REPLY • link updated 3.1 years ago by Ram 43k • written 9.5 years ago by biorepine ★ 1.5k

0

Entering edit mode

You'll likely have to ask them to upload the peak calls then.

ADD REPLY • link updated 3.1 years ago by Ram 43k • written 9.5 years ago by Devon Ryan 104k

Login before adding your answer.