## Description

ENCODE region-wide location analysis of H3 and H4 histones was conducted employing ChIP-chip using chromatin extracted from GM06990 (lymphoblastoid) and K562 (myeloid leukemia-derived) cells. 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.

Track | Cell Line/Type | Antibody | Epitope | Data FTP access | Histone | Array ID
--- | --- | --- | --- | --- | --- | ---
1: SI H3K4m1 GM06990 | GM06990 | ab8895 | H3K4me1 | H3K4me1_GM06990_1 | H3 monomethyl lysine 4 | ENCODE3.1.1
2: SI H3K4m2 GM06990 | GM06990 | ab7766 | H3K4me2 | H3K4me2_GM06990_1 | H3 dimethyl lysine 4 | ENCODE3.1.1
3: SI H3K4m3 GM06990 | GM06990 | ab8580 | H3K4me3 | H3K4me3_GM06990_2 | H3 trimethyl lysine 4 | ENCODE3.1.1
4: SI H3ac GM06990 | GM06990 | 06-599 | H3ac | H3ac_GM06990_1 | H3 acetylated lysines 9 and 14 | ENCODE3.1.1
5: SI H4ac GM06990 | GM06990 | 06-866 | H4ac | H4ac_GM06990_1 | H4 acetylated lysines 5, 8, 12, 16 | ENCODE3.1.1
6: SI H3K4me2 K562 | K562 | ab7766 | H3K4me2 | H3K4me2_K562_1 | H3 K4 dimethylated | ENCODE3.1.1
7: SI H3K4me3 K562 | K562 | ab8580 | H3K4me3 | H3K4me3_K562_1 | H3 trimethyl lysine 4 | ENCODE3.1.1
8: SI H3ac K562 | K562 | 06-599 | H3ac | H3ac_K562_1 | H3 acetylated | ENCODE3.1.1
9: SI H4ac K562 | K562 | 06-866 | H4ac | H4ac_K562_1 | H4 acetylated | ENCODE3.1.1

## 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 a DNA array. 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 FTP site as indicated in the table above.

## Credits

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