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Roadmap data by sample Tracks

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Adipose Derived Mesenchymal Stem Cell Cultured Cells  Adipose Derived Mesenchymal Stem Cell Cultured Cells tracks for 7 assay type(s)  
Adipose Nuclei  Adipose Nuclei tracks for 8 assay type(s)  
Adipose Tissue  Adipose Tissue tracks for 4 assay type(s)  
Adrenal Gland  Adrenal Gland tracks for 7 assay type(s)  
Adult Kidney  Adult Kidney tracks for 8 assay type(s)  
Adult Liver  Adult Liver tracks for 10 assay type(s)  
Aorta  Aorta tracks for 8 assay type(s)  
Bladder  Bladder tracks for 5 assay type(s)  
Bone Marrow Derived Mesenchymal Stem Cell Cultured Cells  Bone Marrow Derived Mesenchymal Stem Cell Cultured Cells tracks for 9 assay type(s)  
Brain Angular Gyrus  Brain Angular Gyrus tracks for 9 assay type(s)  
Brain Anterior Caudate  Brain Anterior Caudate tracks for 9 assay type(s)  
Brain Cerebellum  Brain Cerebellum tracks for 1 assay type(s)  
Brain Cingulate Gyrus  Brain Cingulate Gyrus tracks for 9 assay type(s)  
Brain Germinal Matrix  Brain Germinal Matrix tracks for 10 assay type(s)  
Brain Hippocampus Middle  Brain Hippocampus Middle tracks for 10 assay type(s)  
Brain Inferior Temporal Lobe  Brain Inferior Temporal Lobe tracks for 9 assay type(s)  
Brain Mid Frontal Lobe  Brain Mid Frontal Lobe tracks for 9 assay type(s)  
Brain Substantia Nigra  Brain Substantia Nigra tracks for 9 assay type(s)  
Breast Fibroblast Primary Cells  Breast Fibroblast Primary Cells tracks for 7 assay type(s)  
Breast Luminal Epithelial Cells  Breast Luminal Epithelial Cells tracks for 10 assay type(s)  
Breast Myoepithelial Cells  Breast Myoepithelial Cells tracks for 12 assay type(s)  
Breast Stem Cells  Breast Stem Cells tracks for 5 assay type(s)  
Breast vHMEC  Breast vHMEC tracks for 12 assay type(s)  
CD14 Primary Cells  CD14 Primary Cells tracks for 8 assay type(s)  
CD15 Primary Cells  CD15 Primary Cells tracks for 7 assay type(s)  
CD19 Primary Cells  CD19 Primary Cells tracks for 9 assay type(s)  
CD20 Primary Cells  CD20 Primary Cells tracks for 1 assay type(s)  
CD3 Primary Cells  CD3 Primary Cells tracks for 10 assay type(s)  
CD34 Cultured Cells  CD34 Cultured Cells tracks for 6 assay type(s)  
CD34 Primary Cells  CD34 Primary Cells tracks for 7 assay type(s)  
CD4 Memory Primary Cells  CD4 Memory Primary Cells tracks for 11 assay type(s)  
CD4 Naive Primary Cells  CD4 Naive Primary Cells tracks for 11 assay type(s)  
CD4 Primary Cells  CD4 Primary Cells tracks for 5 assay type(s)  
CD4+ CD25+ CD127- Treg Primary Cells  CD4+ CD25+ CD127- Treg Primary Cells tracks for 7 assay type(s)  
CD4+ CD25+ CD127- Treg Primary Cells  CD4+ CD25+ CD127- Treg Primary Cells tracks for 6 assay type(s)  
CD4+ CD25- CD45RA Naive Primary Cells  CD4+ CD25- CD45RA Naive Primary Cells tracks for 6 assay type(s)  
CD4+ CD25- CD45RA+ Naive Primary Cells  CD4+ CD25- CD45RA+ Naive Primary Cells tracks for 6 assay type(s)  
CD4+ CD25- CD45RA+ Naive Primary Cells  CD4+ CD25- CD45RA+ Naive Primary Cells tracks for 1 assay type(s)  
CD4+ CD25- CD45RO Memory Primary Cells  CD4+ CD25- CD45RO Memory Primary Cells tracks for 7 assay type(s)  
CD4+ CD25- CD45RO+ Memory Primary Cells  CD4+ CD25- CD45RO+ Memory Primary Cells tracks for 6 assay type(s)  
CD4+ CD25- IL17 PMA-Ionomcyin stimulated Th17 Primary Cells  CD4+ CD25- IL17 PMA-Ionomcyin stimulated Th17 Primary Cells tracks for 5 assay type(s)  
CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells  CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells tracks for 2 assay type(s)  
CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells  CD4+ CD25- IL17+ PMA-Ionomcyin stimulated Th17 Primary Cells tracks for 6 assay type(s)  
CD4+ CD25- IL17- PMA-Ionomycin stimulated MACS purified Th Primary Cells  CD4+ CD25- IL17- PMA-Ionomycin stimulated MACS purified Th Primary Cells tracks for 7 assay type(s)  
CD4+ CD25- IL17- PMA-Ionomycin stimulated MACS purified Th Primary Cells  CD4+ CD25- IL17- PMA-Ionomycin stimulated MACS purified Th Primary Cells tracks for 7 assay type(s)  
CD4+ CD25- Th Primary Cells  CD4+ CD25- Th Primary Cells tracks for 6 assay type(s)  
CD4+ CD25- Th Primary Cells  CD4+ CD25- Th Primary Cells tracks for 7 assay type(s)  
CD4+ CD25int CD127 Tmem Primary Cells  CD4+ CD25int CD127 Tmem Primary Cells tracks for 3 assay type(s)  
CD4+ CD25int CD127+ Tmem Primary Cells  CD4+ CD25int CD127+ Tmem Primary Cells tracks for 7 assay type(s)  
CD4+ CD25int CD127+ Tmem Primary Cells  CD4+ CD25int CD127+ Tmem Primary Cells tracks for 4 assay type(s)  
CD56 Primary Cells  CD56 Primary Cells tracks for 8 assay type(s)  
CD8 Memory Primary Cells  CD8 Memory Primary Cells tracks for 7 assay type(s)  
CD8 Naive Primary Cells  CD8 Naive Primary Cells tracks for 12 assay type(s)  
CD8 Primary Cells  CD8 Primary Cells tracks for 7 assay type(s)  
Chondrocytes from Bone Marrow Derived Mesenchymal Stem Cell Cultured Cells  Chondrocytes from Bone Marrow Derived Mesenchymal Stem Cell Cultured Cells tracks for 9 assay type(s)  
Colon Smooth Muscle  Colon Smooth Muscle tracks for 9 assay type(s)  
Colonic Mucosa  Colonic Mucosa tracks for 9 assay type(s)  
Duodenum Mucosa  Duodenum Mucosa tracks for 9 assay type(s)  
Duodenum Smooth Muscle  Duodenum Smooth Muscle tracks for 7 assay type(s)  
ES-I3  ES-I3 tracks for 8 assay type(s)  
ES-WA7  ES-WA7 tracks for 8 assay type(s)  
Esophagus  Esophagus tracks for 9 assay type(s)  
Fetal Adrenal Gland  Fetal Adrenal Gland tracks for 8 assay type(s)  
Fetal Brain  Fetal Brain tracks for 14 assay type(s)  
Fetal Heart  Fetal Heart tracks for 10 assay type(s)  
Fetal Intestine Large  Fetal Intestine Large tracks for 9 assay type(s)  
Fetal Intestine Small  Fetal Intestine Small tracks for 9 assay type(s)  
Fetal Kidney  Fetal Kidney tracks for 9 assay type(s)  
Fetal Kidney Left  Fetal Kidney Left tracks for 1 assay type(s)  
Fetal Kidney Right  Fetal Kidney Right tracks for 1 assay type(s)  
Fetal Lung  Fetal Lung tracks for 10 assay type(s)  
Fetal Lung Left  Fetal Lung Left tracks for 2 assay type(s)  
Fetal Lung Right  Fetal Lung Right tracks for 2 assay type(s)  
Fetal Muscle Arm  Fetal Muscle Arm tracks for 3 assay type(s)  
Fetal Muscle Back  Fetal Muscle Back tracks for 2 assay type(s)  
Fetal Muscle Leg  Fetal Muscle Leg tracks for 10 assay type(s)  
Fetal Muscle Lower Limb Skeletal  Fetal Muscle Lower Limb Skeletal tracks for 2 assay type(s)  
Fetal Muscle Trunk  Fetal Muscle Trunk tracks for 9 assay type(s)  
Fetal Muscle Upper Limb Skeletal  Fetal Muscle Upper Limb Skeletal tracks for 2 assay type(s)  
Fetal Muscle Upper Trunk  Fetal Muscle Upper Trunk tracks for 1 assay type(s)  
Fetal Ovary  Fetal Ovary tracks for 2 assay type(s)  
Fetal Placenta  Fetal Placenta tracks for 8 assay type(s)  
Fetal Renal Cortex  Fetal Renal Cortex tracks for 1 assay type(s)  
Fetal Renal Cortex Left  Fetal Renal Cortex Left tracks for 1 assay type(s)  
Fetal Renal Cortex Right  Fetal Renal Cortex Right tracks for 1 assay type(s)  
Fetal Renal Pelvis  Fetal Renal Pelvis tracks for 1 assay type(s)  
Fetal Renal Pelvis Left  Fetal Renal Pelvis Left tracks for 1 assay type(s)  
Fetal Renal Pelvis Right  Fetal Renal Pelvis Right tracks for 1 assay type(s)  
Fetal Skin  Fetal Skin tracks for 1 assay type(s)  
Fetal Spinal Cord  Fetal Spinal Cord tracks for 1 assay type(s)  
Fetal Spinal Cord  Fetal Spinal Cord tracks for 2 assay type(s)  
Fetal Spleen  Fetal Spleen tracks for 1 assay type(s)  
Fetal Stomach  Fetal Stomach tracks for 8 assay type(s)  
Fetal Testes  Fetal Testes tracks for 1 assay type(s)  
Fetal Thymus  Fetal Thymus tracks for 10 assay type(s)  
Fibroblasts Fetal Skin Abdomen  Fibroblasts Fetal Skin Abdomen tracks for 2 assay type(s)  
Fibroblasts Fetal Skin Back  Fibroblasts Fetal Skin Back tracks for 2 assay type(s)  
Fibroblasts Fetal Skin Biceps Left  Fibroblasts Fetal Skin Biceps Left tracks for 1 assay type(s)  
Fibroblasts Fetal Skin Biceps Right  Fibroblasts Fetal Skin Biceps Right tracks for 1 assay type(s)  
Fibroblasts Fetal Skin Quadriceps Left  Fibroblasts Fetal Skin Quadriceps Left tracks for 1 assay type(s)  
Fibroblasts Fetal Skin Quadriceps Right  Fibroblasts Fetal Skin Quadriceps Right tracks for 1 assay type(s)  
Fibroblasts Fetal Skin Scalp  Fibroblasts Fetal Skin Scalp tracks for 2 assay type(s)  
Fibroblasts Fetal Skin Upper Back  Fibroblasts Fetal Skin Upper Back tracks for 1 assay type(s)  
Gastric  Gastric tracks for 10 assay type(s)  
H1 BMP4 Derived Mesendoderm Cultured Cells  H1 BMP4 Derived Mesendoderm Cultured Cells tracks for 1 assay type(s)  
H1 BMP4 Derived Mesendoderm Cultured Cells  H1 BMP4 Derived Mesendoderm Cultured Cells tracks for 5 assay type(s)  
H1 BMP4 Derived Mesendoderm Cultured Cells  H1 BMP4 Derived Mesendoderm Cultured Cells tracks for 18 assay type(s)  
H1 BMP4 Derived Trophoblast Cultured Cells  H1 BMP4 Derived Trophoblast Cultured Cells tracks for 26 assay type(s)  
H1 BMP4 Derived Trophoblast Cultured Cells  H1 BMP4 Derived Trophoblast Cultured Cells tracks for 2 assay type(s)  
H1 Derived Embryoid Body Cultured Cells  H1 Derived Embryoid Body Cultured Cells tracks for 1 assay type(s)  
H1 Derived Mesenchymal Stem Cells  H1 Derived Mesenchymal Stem Cells tracks for 25 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells  H1 Derived Neuronal Progenitor Cultured Cells tracks for 2 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells  H1 Derived Neuronal Progenitor Cultured Cells tracks for 23 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells  H1 Derived Neuronal Progenitor Cultured Cells tracks for 1 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells r1a  H1 Derived Neuronal Progenitor Cultured Cells r1a tracks for 1 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells r1b  H1 Derived Neuronal Progenitor Cultured Cells r1b tracks for 1 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells r1c  H1 Derived Neuronal Progenitor Cultured Cells r1c tracks for 1 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells r2a  H1 Derived Neuronal Progenitor Cultured Cells r2a tracks for 1 assay type(s)  
H1 Derived Neuronal Progenitor Cultured Cells r2b  H1 Derived Neuronal Progenitor Cultured Cells r2b tracks for 1 assay type(s)  
H1-BMP4  H1-BMP4 tracks for 2 assay type(s)  
H1Es  H1Es tracks for 34 assay type(s)  
H9 Cell line  H9 Cell line tracks for 32 assay type(s)  
H9 Derived Embryoid Body Cultured Cells  H9 Derived Embryoid Body Cultured Cells tracks for 1 assay type(s)  
H9 Derived Neuron Cultured Cells  H9 Derived Neuron Cultured Cells tracks for 1 assay type(s)  
H9 Derived Neuron Cultured Cells  H9 Derived Neuron Cultured Cells tracks for 6 assay type(s)  
H9 Derived Neuron Cultured Cells  H9 Derived Neuron Cultured Cells tracks for 1 assay type(s)  
H9 Derived Neuronal Progenitor Cultured Cells  H9 Derived Neuronal Progenitor Cultured Cells tracks for 7 assay type(s)  
H9 Derived Neuronal Progenitor Cultured Cells  H9 Derived Neuronal Progenitor Cultured Cells tracks for 1 assay type(s)  
Heart  Heart tracks for 1 assay type(s)  
hESC Derived CD184 Endoderm Cultured Cells  hESC Derived CD184 Endoderm Cultured Cells tracks for 1 assay type(s)  
hESC Derived CD184+ Endoderm Cultured Cells  hESC Derived CD184+ Endoderm Cultured Cells tracks for 10 assay type(s)  
hESC Derived CD56+ Ectoderm Cultured Cells  hESC Derived CD56+ Ectoderm Cultured Cells tracks for 9 assay type(s)  
hESC Derived CD56+ Mesoderm Cultured Cells  hESC Derived CD56+ Mesoderm Cultured Cells tracks for 9 assay type(s)  
HUES1  HUES1 tracks for 1 assay type(s)  
HUES1 Derived Embryoid Body Cultured Cells  HUES1 Derived Embryoid Body Cultured Cells tracks for 1 assay type(s)  
HUES13  HUES13 tracks for 1 assay type(s)  
HUES28  HUES28 tracks for 1 assay type(s)  
HUES3  HUES3 tracks for 1 assay type(s)  
HUES3 Derived Embryoid Body Cultured Cells  HUES3 Derived Embryoid Body Cultured Cells tracks for 1 assay type(s)  
HUES44  HUES44 tracks for 1 assay type(s)  
HUES45  HUES45 tracks for 1 assay type(s)  
HUES45 Derived Embryoid Body Cultured Cells  HUES45 Derived Embryoid Body Cultured Cells tracks for 1 assay type(s)  
HUES48  HUES48 tracks for 9 assay type(s)  
HUES49  HUES49 tracks for 1 assay type(s)  
HUES53  HUES53 tracks for 1 assay type(s)  
HUES6  HUES6 tracks for 9 assay type(s)  
HUES6 Derived Embryoid Body Cultured Cells  HUES6 Derived Embryoid Body Cultured Cells tracks for 1 assay type(s)  
HUES62  HUES62 tracks for 1 assay type(s)  
HUES63  HUES63 tracks for 1 assay type(s)  
HUES64  HUES64 tracks for 11 assay type(s)  
HUES65  HUES65 tracks for 1 assay type(s)  
HUES66  HUES66 tracks for 1 assay type(s)  
HUES8  HUES8 tracks for 1 assay type(s)  
HUES9  HUES9 tracks for 1 assay type(s)  
IMR90  IMR90 tracks for 33 assay type(s)  
iPS DF 19  iPS DF 19 tracks for 1 assay type(s)  
iPS DF 19.11  iPS DF 19.11 tracks for 8 assay type(s)  
iPS DF 19.7  iPS DF 19.7 tracks for 1 assay type(s)  
iPS DF 4.7  iPS DF 4.7 tracks for 1 assay type(s)  
iPS DF 6.9  iPS DF 6.9 tracks for 8 assay type(s)  
iPS-DF.19.11  iPS-DF.19.11 tracks for 1 assay type(s)  
iPS-DF.19.11  iPS-DF.19.11 tracks for 1 assay type(s)  
iPS-DF.6.9  iPS-DF.6.9 tracks for 1 assay type(s)  
iPS-DF.6.9  iPS-DF.6.9 tracks for 1 assay type(s)  
iPS11a  iPS11a tracks for 3 assay type(s)  
iPS11b  iPS11b tracks for 1 assay type(s)  
iPS11c  iPS11c tracks for 1 assay type(s)  
iPS15b  iPS15b tracks for 8 assay type(s)  
iPS17a  iPS17a tracks for 1 assay type(s)  
iPS17b  iPS17b tracks for 1 assay type(s)  
iPS18a  iPS18a tracks for 9 assay type(s)  
iPS18b  iPS18b tracks for 2 assay type(s)  
iPS18c  iPS18c tracks for 7 assay type(s)  
iPS20b  iPS20b tracks for 9 assay type(s)  
iPS27b  iPS27b tracks for 1 assay type(s)  
iPS27e  iPS27e tracks for 1 assay type(s)  
Left Ventricle  Left Ventricle tracks for 9 assay type(s)  
Lung  Lung tracks for 8 assay type(s)  
Mesenchymal Stem Cell Derived Adipocyte Cultured Cells  Mesenchymal Stem Cell Derived Adipocyte Cultured Cells tracks for 7 assay type(s)  
Mobiled CD34  Mobiled CD34 tracks for 10 assay type(s)  
Mobilized CD3 Primary Cells  Mobilized CD3 Primary Cells tracks for 1 assay type(s)  
Mobilized CD34 Primary Cells  Mobilized CD34 Primary Cells tracks for 2 assay type(s)  
Mobilized CD4 Primary Cells  Mobilized CD4 Primary Cells tracks for 2 assay type(s)  
Mobilized CD8 Primary Cells  Mobilized CD8 Primary Cells tracks for 1 assay type(s)  
Muscle Satellite Cultured Cells  Muscle Satellite Cultured Cells tracks for 8 assay type(s)  
Neurosphere Cultured Cells Cortex Derived  Neurosphere Cultured Cells Cortex Derived tracks for 11 assay type(s)  
Neurosphere Cultured Cells Ganglionic Eminence Derived  Neurosphere Cultured Cells Ganglionic Eminence Derived tracks for 12 assay type(s)  
Ovary  Ovary tracks for 8 assay type(s)  
Pancreas  Pancreas tracks for 10 assay type(s)  
Pancreatic Islets  Pancreatic Islets tracks for 10 assay type(s)  
Penis Foreskin Fibroblast Primary Cells  Penis Foreskin Fibroblast Primary Cells tracks for 14 assay type(s)  
Penis Foreskin Keratinocyte Primary Cells  Penis Foreskin Keratinocyte Primary Cells tracks for 15 assay type(s)  
Penis Foreskin Melanocyte Primary Cells  Penis Foreskin Melanocyte Primary Cells tracks for 13 assay type(s)  
Peripheral Blood Mononuclear Primary Cells  Peripheral Blood Mononuclear Primary Cells tracks for 9 assay type(s)  
Peripheral Blood Mononuclear Primary Cells  Peripheral Blood Mononuclear Primary Cells tracks for 8 assay type(s)  
Placenta Amnion  Placenta Amnion tracks for 8 assay type(s)  
Placenta Basal Plate  Placenta Basal Plate tracks for 1 assay type(s)  
Placenta Chorion Smooth  Placenta Chorion Smooth tracks for 7 assay type(s)  
Placenta Trophoblast Primary Cells  Placenta Trophoblast Primary Cells tracks for 1 assay type(s)  
Placenta Villi  Placenta Villi tracks for 1 assay type(s)  
Primary Fibroblast  Primary Fibroblast tracks for 1 assay type(s)  
Psoas Muscle  Psoas Muscle tracks for 9 assay type(s)  
Rectal Mucosa  Rectal Mucosa tracks for 9 assay type(s)  
Rectal Smooth Muscle  Rectal Smooth Muscle tracks for 9 assay type(s)  
Right Atrium  Right Atrium tracks for 7 assay type(s)  
Right Ventricle  Right Ventricle tracks for 8 assay type(s)  
Sigmoid Colon  Sigmoid Colon tracks for 9 assay type(s)  
Skeletal Muscle  Skeletal Muscle tracks for 2 assay type(s)  
Small Intestine  Small Intestine tracks for 10 assay type(s)  
Spleen  Spleen tracks for 9 assay type(s)  
Stomach Mucosa  Stomach Mucosa tracks for 8 assay type(s)  
Stomach Mucosa  Stomach Mucosa tracks for 7 assay type(s)  
Stomach Smooth Muscle  Stomach Smooth Muscle tracks for 9 assay type(s)  
Testis Spermatozoa Primary Cells  Testis Spermatozoa Primary Cells tracks for 1 assay type(s)  
Th17 Primary Cells  Th17 Primary Cells tracks for 2 assay type(s)  
Thymus  Thymus tracks for 7 assay type(s)  
Treg Primary Cells  Treg Primary Cells tracks for 5 assay type(s)  
UCSF-4star  UCSF-4star tracks for 8 assay type(s)  
UCSF-4Star  UCSF-4Star tracks for 6 assay type(s)  

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

Description

These tracks are genome-wide DNA methylation maps generated by Roadmap Epigenomics Project. Each track is collection of DNA methylation experiment data on one sample type.

DNA methylation of human DNA mostly happens on cytosine bases of CpG dinucleotides. The methylated DNA usually prevent accessibility of regulatory proteins and hampers transcription, while unmethylated DNA is usually indicative of open chromatin. The MeDIP-Seq and MRE-Seq experiments are usually performed on same sample to identify genome-wide DNA methylation pattern. MeDIP-Seq (methylated DNA immunoprecipitation and sequencing) is a ChIP-based approach utilizing antibody against methylated cytosine. This method enriches methylated DNA and high read count indicates high likelihood of underlying region is methylated. The MRE-Seq (methylation restriction enzyme sequencing) uses methylation-sensitive restriction enzymes to digest DNA, and only cut at unmethylated restriction sites. The cut restriction sites will be detected by sequencing where reads aligned to a restriction site on reference genome means the restriction site is unmethylated.

The MethylC-Seq (MethylC sequencing) uses bisulfite to convert methylated cytosines to thymines before sequencing. The percentage of reads with a T versus a C indicates the percentage methylation at the cytosine. Details can be found in this paper Lister R, et al., Nature. 2009 Nov 19;462(7271):315-22. .

RRBS (Reduced-Representation-Bisulfite-Sequencing) is similar to MethylC-seq except RRBS uses restriction enzyme to fragment the genome into fragments suitably-sized for sequencing. While RRBS produces percent methylation similar to MethylC-seq, it is limited to cytosines that are within restriction fragments of a suitable size and tend to measure CpG dense regions only. Details can be found in this paper: Meissener, A. et al., Nucleic Acids Res. 2005; 33(18): 5868-5877. .

Display conventions

Each track can be turned on/off individually. Inside each track, sub-tracks are displayed in same vertical space and are overlayed with transparent colors for contrast. All tracks 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. Sub-tracks sharing same space use same scale.

Methods

Experimental protocols: follow this link for experimental protocols.

Data processing: EDACC carried out data processing and quality assessment. Details are fully explained here . In brief, sequencing reads were aligned with 'Pash' program to derive read density data. The read density data is prepared into 'wiggle' format files with fixed step length of 20 bp. Data in wiggle and other formats have been deposited in NCBI Gene Expression Omnibus database for public access.

Quality control: the HotSpot was one of the methods used to assess quality of MeDIP-Seq experiments. The long track name includes a "Hotspot_Score" field indicates the percentage of sequencing reads found inside hotspot regions. The "Pcnt" field shows the percentile of current experiment score in all MeDIP-Seq experiments. This value is subject to change in next Data Release. The most comprehensive and up-to-date description on QC Metrics used by the consortium can be found here .

Release Notes

The data is combination of Release II, III, IV, V, VI, VII, VIII and IX which were mapped to human reference genome version hg19. The data is production of Roadmap Epigenomics Project.

Please follow the link for Roadmap Epigenomics data access policy

Credits

These data were generated in labs from three institutions: UCSF, UBC, UCSD as part of Roadmap Epigenomics Project.

Useful links