Sanger ChIP Track Settings

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Sanger ChIP-chip (histones H3,H4 ab in GM06990, K562, HeLa, HFL-1, MOLT4, and PTR8 cells) (All ENCODE Chromatin Immunoprecipitation tracks)

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*Cell_Type*
GM06990
K562
HeLa
HFL-1
MOLT4
PTR8

*Factor*
H3K4me1
H3K4me2
H3K4me3
H3ac
H4ac
H3K9me3
H3K27me3
H3K36me3
H3K79me3
CTCF

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	hide Configure	SI H3K4m1 GM6990	Sanger Institute ChIP-chip (H3K4me1 ab, GM06990 cells)	Data format
	hide Configure	SI H3K4m2 GM6990	Sanger Institute ChIP-chip (H3K4me2 ab, GM06990 cells)	Data format
	hide Configure	SI H3K4m3 GM6990	Sanger Institute ChIP-chip (H3K4me3 ab, GM06990 cells)	Data format
	hide Configure	SI H3ac GM06990	Sanger Institute ChIP-chip (H3ac ab, GM06990 cells)	Data format
	hide Configure	SI H4ac GM06990	Sanger Institute ChIP-chip (H4ac ab, GM06990 cells)	Data format
	hide Configure	SI H3K9me3 GM06990	Sanger Institute ChIP-chip (H3K9me3 ab, GM06990 cells)	Data format
	hide Configure	SI H3K27me3 GM06990	Sanger Institute ChIP-chip (H3K27me3 ab, GM06990 cells)	Data format
	hide Configure	SI H3K36me3 GM06990	Sanger Institute ChIP-chip (H3K36me3 ab, GM06990 cells)	Data format
	hide Configure	SI H3K79me3 GM06990	Sanger Institute ChIP-chip (H3K79me3 ab, GM06990 cells)	Data format
	hide Configure	SI CTCF GM06990	Sanger Institute ChIP-chip (CTCF ab, GM06990 cells)	Data format
	hide Configure	SI H3K4me2 K562	Sanger Institute ChIP-chip (H3K4me2 ab, K562 cells)	Data format
	hide Configure	SI H3K4me3 K562	Sanger Institute ChIP-chip (H3K4me3 ab, K562 cells)	Data format
	hide Configure	SI H3ac K562	Sanger Institute ChIP-chip (H3ac ab, K562 cells)	Data format
	hide Configure	SI H4ac K562	Sanger Institute ChIP-chip (H4ac ab, K562 cells)	Data format
	hide Configure	SI H3K4me1 HeLa	Sanger Institute ChIP-chip (H3K4me1 ab, HeLa cells)	Data format
	hide Configure	SI H3K4me2 HeLa	Sanger Institute ChIP-chip (H3K4me2 ab, HeLa cells)	Data format
	hide Configure	SI H3K4me3 HeLa	Sanger Institute ChIP-chip (H3K4me3 ab, HeLa cells)	Data format
	hide Configure	SI H3ac HeLa	Sanger Institute ChIP-chip (H3ac ab, HeLa cells)	Data format
	hide Configure	SI H4ac HeLa	Sanger Institute ChIP-chip (H4ac ab, HeLa cells)	Data format
	hide Configure	SI H3K4me1 HFL-1	Sanger Institute ChIP-chip (H3K4me1 ab, HFL-1 cells)	Data format
	hide Configure	SI H3K4me2 HFL-1	Sanger Institute ChIP-chip (H3K4me2 ab, HFL-1 cells)	Data format
	hide Configure	SI H3K4me3 HFL-1	Sanger Institute ChIP-chip (H3K4me3 ab, HFL-1 cells)	Data format
	hide Configure	SI H3ac HFL-1	Sanger Institute ChIP-chip (H3ac ab, HFL-1 cells)	Data format
	hide Configure	SI H4ac HFL-1	Sanger Institute ChIP-chip (H4ac ab, HFL-1 cells)	Data format
	hide Configure	SI H3K4me1 MOLT4	Sanger Institute ChIP-chip (H3K4me1 ab, MOLT4 cells)	Data format
	hide Configure	SI H3K4me2 MOLT4	Sanger Institute ChIP-chip (H3K4me2 ab, MOLT4 cells)	Data format
	hide Configure	SI H3K4me3 MOLT4	Sanger Institute ChIP-chip (H3K4me3 ab, MOLT4 cells)	Data format
	hide Configure	SI H3ac MOLT4	Sanger Institute ChIP-chip (H3ac ab, MOLT4 cells)	Data format
	hide Configure	SI H4ac MOLT4	Sanger Institute ChIP-chip (H4ac ab, MOLT4 cells)	Data format
	hide Configure	SI H3K4me1 PTR8	Sanger Institute ChIP-chip (H3K4me1 ab, PTR8 cells)	Data format
	hide Configure	SI H3K4me2 PTR8	Sanger Institute ChIP-chip (H3K4me2 ab, PTR8 cells)	Data format
	hide Configure	SI H3K4me3 PTR8	Sanger Institute ChIP-chip (H3K4me3 ab, PTR8 cells)	Data format

Source data version: ENCODE June & Oct 2005 Freezes, Aug 2006 & Jan 2007 data
Assembly: Human May 2004 (NCBI35/hg17)

Description

ENCODE region-wide location analysis of H3 and H4 histones was conducted employing ChIP-chip using chromatin extracted from GM06990 (lymphoblastoid), K562 (myeloid leukemia-derived), HeLaS3 (cervix carcinoma), HFL-1 (embryonic lung fibroblast), MOLT-4 (lymphoblastic leukemia), and PTR8 cells. Experiments were conducted with antibodies to the following histones: H3K4me1, H3K4me2, H3K4me3, H3K9me3, H3K27me3, H3K36me3, H3K79me3, H3ac, H4ac, and CTCF.

Histone methylation and acetylation serves as a stable genomic imprint that regulates gene expression and other epigenetic phenomena. These histones are found in transcriptionally active domains called euchromatin.

Display Conventions and Configuration

This annotation follows the display conventions for composite "wiggle" tracks. The subtracks within this annotation may be configured in a variety of ways to highlight different aspects of the displayed data. The graphical configuration options are shown at the top of the track description page, followed by a list of subtracks. To display only selected subtracks, uncheck the boxes next to the tracks you wish to hide. For more information about the graphical configuration options, click the Graph configuration help link.

Methods

Chromatin from the cell line was cross-linked with 1% formaldehyde, precipitated with antibody binding to the histone, and sheared and hybridized to the Sanger ENCODE3.1.1 DNA microarray. DNA was not amplified prior to hybridization.

The raw and transformed data files reflect fold enrichment over background, averaged over six replicates.

Verification

There are six replicates: two technical replicates (immunoprecipitations) for each of the three biological replicates (cell cultures).

Raw and transformed (averaged) data can be downloaded from the Wellcome Trust Sanger Institute via the ENCODE data access web site or the ENCODE FTP site.

Credits

The data for this track were generated by the ENCODE investigators at the Wellcome Trust Sanger Institute, Hinxton, UK.