Overview of Help-Pages

Public Data in Genome Browser & GenomeInspector

[ENCODE] [Chromatin States] [Constrained Elemements]

1. ENCODE data

Please see "Add/remove ENCODE tracks" in GenomeBrowser for the list of data available from ENCODE.


2. Chromatin state data

The tracks in "Chromatin states" show different chromatin states corresponding to regulatory elements such as active and inactive promoters or weakly and strongly transcribed regions.

Jason Ernst et al. (2011).
Mapping and analysis of chromatin state dynamics in nine human cell types.
Nature 473: 43-49, [PMID: 21441907].

Chromatin state data is available for the cell types listed below.

tissue cell type
blood Gm12878, K562
blood vessel Huvec
breast Hmec
embryonic stem cells H1hesc
liver Hepg2
lung Nhlf
muscle Hsmm
skin Nhek

3. Evolutionary constrained elements

The tracks in "Evolutionary constrained elements" show evolutionary constrained elements according to Kerstin Lindblad-Toh et al. (2011). Kerstin Lindblad-Toh et al. compared the human genome sequence with 29 mammalian genome sequences and identified 4.2% of the human genome as evolutionary constrained.

Kerstin Lindblad-Toh et al. (2011).
A high-resolution map of human evolutionary constraint using 29 mammals.
Nature 478: 476-482, [PMID: 21993624].