Try Genome View; ChIP-chip from the follicular lymphoma cell line RL with H3K4me3, H3K37me3 and Suz12
- By: tayac@subio
- Date: 2010-01-27 14:03:48
Series GSE20019 in GEO is now available to see on Subio Platform by importing ssa file from;
http://www.box.net/shared/vyvq30sn8n
Summary
We conducted genome-wide bisulfite sequencing analysis of the follicular lymphoma cell line RL and found that a large amount of methylated genes are polycomb target genes in ES cells. We therefore conducted a ChIP-chip experiment to determine the methylated genes that are bound by the polycomb protein Suz12. Although 28% of MRIs are PRC2 target genes in ES cells, our ChIP-on-Chip analysis showed that only 13% of MRIs are associated with H3K27Me3 marks and only 5% of the MRIs are bound by Suz12 in RL cells in vivo.
Overall design
Comparison of DNA methylation with histone modifications in RL cells.
Contributor(s) Shi H
They used NimbleGen HG18 RefSeq promoter array which has annotations of location directly switch to Genome View. If you have loaded human hg18 biological table already, this Series can be displayed in Genome View. If not, you can download this file which is bed formatted human hg18 RefSeq genes.
http://www.box.net/shared/gcv9xulp39
See from page 13 of this Document
http://www.subio.jp/share/getting_started.pdf
how to load a biological table.
You can easily import the .ssa file into Subio Platform and view it.
Subio Platform is a free omics data browser for biologists.
Windows and Mac versions are available.
https://www.subio.jp/products/download
Instruction movie for importing .ssa file
http://www.screencast.com/t/OTM2MDE1YTg
No comment.