Encode-enhancers: Difference between revisions
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Distal regulatory modules (DRMs) from Yip et al for different cell-types: | Distal regulatory modules (DRMs) from Yip et al for different cell-types followed by the union from all cell-types: | ||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_Gm12878_merged.bed DRM_Gm12878_merged.bed] | [http://homes.gersteinlab.org/Encode_enhancers/DRM_Gm12878_merged.bed DRM_Gm12878_merged.bed] | ||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_H1hesc_merged.bed DRM_H1hesc_merged.bed] | [http://homes.gersteinlab.org/Encode_enhancers/DRM_H1hesc_merged.bed DRM_H1hesc_merged.bed] | ||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_Helas3_merged.bed DRM_Helas3_merged.bed] | [http://homes.gersteinlab.org/Encode_enhancers/DRM_Helas3_merged.bed DRM_Helas3_merged.bed] | ||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_Hepg2_merged.bed DRM_Hepg2_merged.bed] | [http://homes.gersteinlab.org/Encode_enhancers/DRM_Hepg2_merged.bed DRM_Hepg2_merged.bed] | ||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_K562_merged.bed DRM_K562_merged.bed] | [http://homes.gersteinlab.org/Encode_enhancers/DRM_K562_merged.bed DRM_K562_merged.bed] | ||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_union_merged.bed DRM_union_merged.bed] | |||
[http://homes.gersteinlab.org/Encode_enhancers/DRM_union_merged.bed DRM_union_merged.bed] | |||
[http://homes.gersteinlab.org/Encode_enhancers/chromhmm.segway.all_celllines.enhancer.sorted.bed chromhmm.segway.all_celllines.enhancer.sorted.bed ] <br> | [http://homes.gersteinlab.org/Encode_enhancers/chromhmm.segway.all_celllines.enhancer.sorted.bed chromhmm.segway.all_celllines.enhancer.sorted.bed ] <br> | ||
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[http://homes.gersteinlab.org/Encode_enhancers/chromhmm_segway.k562.enhancer.bed chromhmm_segway.k562.enhancer.bed] <br> | [http://homes.gersteinlab.org/Encode_enhancers/chromhmm_segway.k562.enhancer.bed chromhmm_segway.k562.enhancer.bed] <br> | ||
== Unions and Insections == | |||
[http://homes.gersteinlab.org/Encode_enhancers/ENHANCER_CHROMHMM_SEGWAY_DRM.intersect.bed ENHANCER_CHROMHMM_SEGWAY_DRM.intersect.bed]: ChromHMM/Segway enhancers that intersect with DRMs <br> | |||
[http://homes.gersteinlab.org/Encode_enhancers/ENHANCER_CHROMHMM_SEGWAY_DRM.union.bed ENHANCER_CHROMHMM_SEGWAY_DRM.union.bed]: Union of all enhancers <br> | |||
Revision as of 20:13, 27 September 2013
This page lists the ENCODE 2 enhancers
These files are derived from data at
http://www.ebi.ac.uk/~swilder/Superclustering/concordances4
(described in papers: Hoffman et al, NAR, 2013; Hoffman et al, Nature Methods, 2013; and Ernst and Kellis, Nature Methods, 2012)
and
http://papers.gersteinlab.org/papers/metatrack
(described in Yip et al, Genome Biol, 2012))
Original Data Files
Distal regulatory modules (DRMs) from Yip et al for different cell-types followed by the union from all cell-types:
chromhmm.segway.all_celllines.enhancer.sorted.bed
chromhmm_segway.gm12878.enhancer.bed
chromhmm_segway.h1hesc.enhancer.bed
chromhmm_segway.helas3.enhancer.bed
chromhmm_segway.hepg2.enhancer.bed
chromhmm_segway.huvec.enhancer.bed
chromhmm_segway.k562.enhancer.bed
Unions and Insections
ENHANCER_CHROMHMM_SEGWAY_DRM.intersect.bed: ChromHMM/Segway enhancers that intersect with DRMs
ENHANCER_CHROMHMM_SEGWAY_DRM.union.bed: Union of all enhancers
