Assay Summary WGBS Summary Track Settings
 
Roadmap Epigenome WGBS Summary

Track collection: Assay Summary

+  Description
+  All tracks in this collection (37)

Display mode:       Reset to defaults

Overlay method:
Type of graph:
Track height: pixels (range: 16 to 64)
Data view scaling: Always include zero: 
Vertical viewing range: min:  max:   (range: 0 to 30)
Transform function:Transform data points by: 
Windowing function: Smoothing window:  pixels
Negate values:
Draw y indicator lines:at y = 0.0:    at y =
Graph configuration help
All subtracks:
List subtracks: only selected/visible    all    ()  
     ENCFF022GYP_adrenal_gland  ENCFF022GYP adrenal_gland by WGBS    Data format 
     ENCFF025PVV_small_intestine  ENCFF025PVV small_intestine by WGBS    Data format 
     ENCFF029LVQ_thymus  ENCFF029LVQ thymus by WGBS    Data format 
     ENCFF031EOZ_IMR-90  ENCFF031EOZ IMR-90 by WGBS    Data format 
     ENCFF031VBH_trophoblast_cell  ENCFF031VBH trophoblast_cell by WGBS    Data format 
     ENCFF034DRC_CD14-positive_monocyte  ENCFF034DRC CD14-positive_monocyte by WGBS    Data format 
     ENCFF039FRP_spleen  ENCFF039FRP spleen by WGBS    Data format 
     ENCFF046RHE_CD14-positive_monocyte  ENCFF046RHE CD14-positive_monocyte by WGBS    Data format 
     ENCFF047NJL_IMR-90  ENCFF047NJL IMR-90 by WGBS    Data format 
     ENCFF050KHZ_small_intestine  ENCFF050KHZ small_intestine by WGBS    Data format 
     ENCFF060CIB_endodermal_cell  ENCFF060CIB endodermal_cell by WGBS    Data format 
     ENCFF069WLE_muscle_of_leg  ENCFF069WLE muscle_of_leg by WGBS    Data format 
     ENCFF084KPV_heart  ENCFF084KPV heart by WGBS    Data format 
     ENCFF095FQR_IMR-90  ENCFF095FQR IMR-90 by WGBS    Data format 
     ENCFF102XWL_mesodermal_cell  ENCFF102XWL mesodermal_cell by WGBS    Data format 
     ENCFF107RMQ_heart  ENCFF107RMQ heart by WGBS    Data format 
     ENCFF108OVY_pancreas  ENCFF108OVY pancreas by WGBS    Data format 
     ENCFF109FOV_endodermal_cell  ENCFF109FOV endodermal_cell by WGBS    Data format 
     ENCFF117ZEN_stomach  ENCFF117ZEN stomach by WGBS    Data format 
     ENCFF135IDS_muscle_of_trunk  ENCFF135IDS muscle_of_trunk by WGBS    Data format 
     ENCFF140BNH_thymus  ENCFF140BNH thymus by WGBS    Data format 
     ENCFF143DAH_mesenchymal_stem_cell  ENCFF143DAH mesenchymal_stem_cell by WGBS    Data format 
     ENCFF149OAK_thymus  ENCFF149OAK thymus by WGBS    Data format 
     ENCFF172RYY_H9  ENCFF172RYY H9 by WGBS    Data format 
     ENCFF191PQY_ectodermal_cell  ENCFF191PQY ectodermal_cell by WGBS    Data format 
     ENCFF210GGG_trophoblast_cell  ENCFF210GGG trophoblast_cell by WGBS    Data format 
     ENCFF213FPF_sigmoid_colon  ENCFF213FPF sigmoid_colon by WGBS    Data format 
     ENCFF233JCD_small_intestine  ENCFF233JCD small_intestine by WGBS    Data format 
     ENCFF238VMR_psoas_muscle  ENCFF238VMR psoas_muscle by WGBS    Data format 
     ENCFF249IVT_lung  ENCFF249IVT lung by WGBS    Data format 
     ENCFF250HPC_spinal_cord  ENCFF250HPC spinal_cord by WGBS    Data format 
     ENCFF252YGC_muscle_of_leg  ENCFF252YGC muscle_of_leg by WGBS    Data format 
     ENCFF257NLC_heart  ENCFF257NLC heart by WGBS    Data format 
     ENCFF261CYG_HUES64  ENCFF261CYG HUES64 by WGBS    Data format 
     ENCFF273LGV_iPS_DF_19.11  ENCFF273LGV iPS_DF_19.11 by WGBS    Data format 
     ENCFF276VKS_stomach  ENCFF276VKS stomach by WGBS    Data format 
     ENCFF283PRJ_HUES64  ENCFF283PRJ HUES64 by WGBS    Data format 
     ENCFF294WWV_esophagus  ENCFF294WWV esophagus by WGBS    Data format 
     ENCFF307QSV_heart_left_ventricle  ENCFF307QSV heart_left_ventricle by WGBS    Data format 
     ENCFF309DOP_mesodermal_cell  ENCFF309DOP mesodermal_cell by WGBS    Data format 
     ENCFF321BBM_mesodermal_cell  ENCFF321BBM mesodermal_cell by WGBS    Data format 
     ENCFF329ICB_IMR-90  ENCFF329ICB IMR-90 by WGBS    Data format 
     ENCFF348PRM_ectodermal_cell  ENCFF348PRM ectodermal_cell by WGBS    Data format 
     ENCFF352CJO_stomach  ENCFF352CJO stomach by WGBS    Data format 
     ENCFF360EGM_adipose_tissue  ENCFF360EGM adipose_tissue by WGBS    Data format 
     ENCFF363UDK_ovary  ENCFF363UDK ovary by WGBS    Data format 
     ENCFF381NCT_common_myeloid_progenitor,_CD34-positive  ENCFF381NCT common_myeloid_progenitor,_CD34-positive by WGBS    Data format 
     ENCFF388NTJ_B_cell  ENCFF388NTJ B_cell by WGBS    Data format 
     ENCFF402PAI_heart_right_ventricle  ENCFF402PAI heart_right_ventricle by WGBS    Data format 
     ENCFF407ICN_endodermal_cell  ENCFF407ICN endodermal_cell by WGBS    Data format 
     ENCFF412HWN_B_cell  ENCFF412HWN B_cell by WGBS    Data format 
     ENCFF415APH_neuronal_stem_cell  ENCFF415APH neuronal_stem_cell by WGBS    Data format 
     ENCFF422YPS_spleen  ENCFF422YPS spleen by WGBS    Data format 
     ENCFF423PGW_H1  ENCFF423PGW H1 by WGBS    Data format 
     ENCFF433WIE_IMR-90  ENCFF433WIE IMR-90 by WGBS    Data format 
     ENCFF434DHW_T-cell  ENCFF434DHW T-cell by WGBS    Data format 
     ENCFF434VBG_heart_left_ventricle  ENCFF434VBG heart_left_ventricle by WGBS    Data format 
     ENCFF448PPG_muscle_of_trunk  ENCFF448PPG muscle_of_trunk by WGBS    Data format 
     ENCFF450MGR_spleen  ENCFF450MGR spleen by WGBS    Data format 
     ENCFF458SQS_neuronal_stem_cell  ENCFF458SQS neuronal_stem_cell by WGBS    Data format 
     ENCFF477JAE_aorta  ENCFF477JAE aorta by WGBS    Data format 
     ENCFF494SXJ_common_myeloid_progenitor,_CD34-positive  ENCFF494SXJ common_myeloid_progenitor,_CD34-positive by WGBS    Data format 
     ENCFF495CIX_stomach  ENCFF495CIX stomach by WGBS    Data format 
     ENCFF502PQA_mesenchymal_stem_cell  ENCFF502PQA mesenchymal_stem_cell by WGBS    Data format 
     ENCFF534VBW_mesodermal_cell  ENCFF534VBW mesodermal_cell by WGBS    Data format 
     ENCFF534WDB_T-cell  ENCFF534WDB T-cell by WGBS    Data format 
     ENCFF537NCQ_small_intestine  ENCFF537NCQ small_intestine by WGBS    Data format 
     ENCFF561WQA_esophagus  ENCFF561WQA esophagus by WGBS    Data format 
     ENCFF565BUS_common_myeloid_progenitor,_CD34-positive  ENCFF565BUS common_myeloid_progenitor,_CD34-positive by WGBS    Data format 
     ENCFF574CIC_heart_right_ventricle  ENCFF574CIC heart_right_ventricle by WGBS    Data format 
     ENCFF578JKP_muscle_of_leg  ENCFF578JKP muscle_of_leg by WGBS    Data format 
     ENCFF578WHT_mesodermal_cell  ENCFF578WHT mesodermal_cell by WGBS    Data format 
     ENCFF591BZF_thymus  ENCFF591BZF thymus by WGBS    Data format 
     ENCFF600LCF_small_intestine  ENCFF600LCF small_intestine by WGBS    Data format 
     ENCFF602WSX_stomach  ENCFF602WSX stomach by WGBS    Data format 
     ENCFF615HLJ_placenta  ENCFF615HLJ placenta by WGBS    Data format 
     ENCFF645YMQ_mesendoderm  ENCFF645YMQ mesendoderm by WGBS    Data format 
     ENCFF663BCC_adrenal_gland  ENCFF663BCC adrenal_gland by WGBS    Data format 
     ENCFF668GWR_CD14-positive_monocyte  ENCFF668GWR CD14-positive_monocyte by WGBS    Data format 
     ENCFF674OLN_large_intestine  ENCFF674OLN large_intestine by WGBS    Data format 
     ENCFF681ZMB_muscle_of_trunk  ENCFF681ZMB muscle_of_trunk by WGBS    Data format 
     ENCFF688TTG_IMR-90  ENCFF688TTG IMR-90 by WGBS    Data format 
     ENCFF700AQS_adrenal_gland  ENCFF700AQS adrenal_gland by WGBS    Data format 
     ENCFF701UYQ_B_cell  ENCFF701UYQ B_cell by WGBS    Data format 
     ENCFF733LOR_CD14-positive_monocyte  ENCFF733LOR CD14-positive_monocyte by WGBS    Data format 
     ENCFF746ZTE_small_intestine  ENCFF746ZTE small_intestine by WGBS    Data format 
     ENCFF759NUO_thymus  ENCFF759NUO thymus by WGBS    Data format 
     ENCFF766QUP_B_cell  ENCFF766QUP B_cell by WGBS    Data format 
     ENCFF768SQH_heart  ENCFF768SQH heart by WGBS    Data format 
     ENCFF780UYT_natural_killer_cell  ENCFF780UYT natural_killer_cell by WGBS    Data format 
     ENCFF785TFN_psoas_muscle  ENCFF785TFN psoas_muscle by WGBS    Data format 
     ENCFF800VLD_endodermal_cell  ENCFF800VLD endodermal_cell by WGBS    Data format 
     ENCFF804ITM_right_cardiac_atrium  ENCFF804ITM right_cardiac_atrium by WGBS    Data format 
     ENCFF805VAL_spinal_cord  ENCFF805VAL spinal_cord by WGBS    Data format 
     ENCFF816OLB_mesendoderm  ENCFF816OLB mesendoderm by WGBS    Data format 
     ENCFF818ZDE_muscle_of_leg  ENCFF818ZDE muscle_of_leg by WGBS    Data format 
     ENCFF831CDV_T-cell  ENCFF831CDV T-cell by WGBS    Data format 
     ENCFF832AMG_muscle_of_trunk  ENCFF832AMG muscle_of_trunk by WGBS    Data format 
     ENCFF835RQG_mesodermal_cell  ENCFF835RQG mesodermal_cell by WGBS    Data format 
     ENCFF839OJR_T-cell  ENCFF839OJR T-cell by WGBS    Data format 
     ENCFF843JJR_neuronal_stem_cell  ENCFF843JJR neuronal_stem_cell by WGBS    Data format 
     ENCFF846IMY_stomach  ENCFF846IMY stomach by WGBS    Data format 
     ENCFF847VCY_large_intestine  ENCFF847VCY large_intestine by WGBS    Data format 
     ENCFF851IIS_common_myeloid_progenitor,_CD34-positive  ENCFF851IIS common_myeloid_progenitor,_CD34-positive by WGBS    Data format 
     ENCFF862OAU_H9  ENCFF862OAU H9 by WGBS    Data format 
     ENCFF872DRG_adrenal_gland  ENCFF872DRG adrenal_gland by WGBS    Data format 
     ENCFF873FWB_iPS_DF_19.11  ENCFF873FWB iPS_DF_19.11 by WGBS    Data format 
     ENCFF881MSR_spinal_cord  ENCFF881MSR spinal_cord by WGBS    Data format 
     ENCFF884KSN_adipose_tissue  ENCFF884KSN adipose_tissue by WGBS    Data format 
     ENCFF891TLY_large_intestine  ENCFF891TLY large_intestine by WGBS    Data format 
     ENCFF892VNH_endodermal_cell  ENCFF892VNH endodermal_cell by WGBS    Data format 
     ENCFF901NEE_mesodermal_cell  ENCFF901NEE mesodermal_cell by WGBS    Data format 
     ENCFF905CSP_iPS_DF_6.9  ENCFF905CSP iPS_DF_6.9 by WGBS    Data format 
     ENCFF932VUM_large_intestine  ENCFF932VUM large_intestine by WGBS    Data format 
     ENCFF939DFV_pancreas  ENCFF939DFV pancreas by WGBS    Data format 
     ENCFF945PUR_sigmoid_colon  ENCFF945PUR sigmoid_colon by WGBS    Data format 
     ENCFF968RMN_adipose_tissue  ENCFF968RMN adipose_tissue by WGBS    Data format 
     ENCFF969PDB_H1  ENCFF969PDB H1 by WGBS    Data format 
     ENCFF969SWK_mesodermal_cell  ENCFF969SWK mesodermal_cell by WGBS    Data format 
     ENCFF974NRU_adrenal_gland  ENCFF974NRU adrenal_gland by WGBS    Data format 
     ENCFF990HTE_lung  ENCFF990HTE lung by WGBS    Data format 
     ENCFF990KXE_small_intestine  ENCFF990KXE small_intestine by WGBS    Data format 
     ENCFF992CLD_stomach  ENCFF992CLD stomach by WGBS    Data format 
     ENCFF992IXV_adrenal_gland  ENCFF992IXV adrenal_gland by WGBS    Data format 
     ENCFF996UMM_spinal_cord  ENCFF996UMM spinal_cord by WGBS    Data format 
    
Metadata:
Assay:total_RNA-seq
OutputType:plus_strand_signal_of_all_reads
Sample:IMR-90
genome:hg38
Data schema/format description and download
Assembly: Human Dec. 2013 (GRCh38/hg38)

Vizhub @ Wash U built this track, and Roadmap Epigenomics Consortium is responsible for its contents.

Description

The track files were processed and hosted by ENCODE project.

This track displays the genomic maps based on the assay type. Data were generated using various assay methods across many different sample types for the Roadmap project.

Display conventions

This track displays read density data in form of wiggle plots. Number of aligned reads is counted at each base pair, and a summarized value is computed for each 20 bp interval for display. The subtracks can be displayed and configured individually. See instructions .

Methods

Experimental protocols:

Protocols are located at the bottom of each experiment page. The list of the experiments can be found here: ChIP-seq   polyA plus RNA-seq   microRNA-seq   small RNA-seq   total RNA-seq   DNase   WGBS .

Pipeline overview: follow this link for pipeline overview.

Credits

These data were generated in the following labs which are listed in alphabetical order:

Bing Ren, UCSD
Bradley Bernstein, Broad Institute
Joe Ecker Lab, Salk Institute for Biological Studies
John Stamatoyannopoulos Lab, University of Washington
Joseph Costello, UCSF