H3K4me1 Track Settings
 
CEMT:H3K4me1

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 All Assay H3K4me1 
Source
Thyroid 
Large Intestine-Colon-Rectosigmoid:Large Intestine-Colon Adenocarcinoma 
Brain-Temporal lobe-Left:Brain-Temporal lobe-Left Oligodendroglioma 
MCF10A 
Thyroid:Thyroid Papillary Carcinoma 
Large Intestine-Colon-Ascending (Right) 
Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Carcinoma 
Large Intestine-Colon-Rectosigmoid 
Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma 
Thyroid:Thyroid Adenoma-Follicular 
Luminal progenitor 
HL60 
B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia 
184-hTert-L2 
Thyroid:Thyroid Goiter 
Brain:Brain Oligodendroglioma-Anaplastic 
Large Intestine-Colon-Ascending (Right):Large Intestine Adenoma 
Luminal cells-mature 
184-hTert-L9 
B cells:Blood Leukemia-Chronic lymphocytic leukemia 
Large Intestine-Colon 
Basal cells 
Large Intestine-Colon-Rectosigmoid:Large Intestine Diverticulitis 
Brain-Frontal Lobe-Right:Brain Oligodendroglioma-Anaplastic 
Hematopoietic 
Brain:Brain Glioblastoma Multiforme 
CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia 
Thyroid:Thyroid Carcinoma - Papillary-Classical 
Stromal cells 
Hematopoietic:Blood Leukemia - Chronic Myeloid 
Brain-Frontal Lobe-Left:Brain-Frontal Lobe-Left Glioblastoma Multiforme-Oligodendroglial component 
Source
 All Assay H3K4me1 
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 Configure 		 HL60  FG015.gDNA  H3K4me1  signal unstranded  CEMT  A23119:FG015.gDNA:HL60:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 MCF10A  CEMT0007.gDNA  H3K4me1  peaks bw  CEMT  A26685:CEMT0007.gDNA:MCF10A:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 MCF10A  CEMT0007.gDNA  H3K4me1  signal unstranded  CEMT  A26685:CEMT0007.gDNA:MCF10A:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 184-hTert-L9  CEMT0008.gDNA  H3K4me1  peaks bw  CEMT  A26692:CEMT0008.gDNA:184-hTert-L9:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 184-hTert-L9  CEMT0008.gDNA  H3K4me1  signal unstranded  CEMT  A26692:CEMT0008.gDNA:184-hTert-L9:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 184-hTert-L2  CEMT0009.gDNA  H3K4me1  peaks bw  CEMT  A26699:CEMT0009.gDNA:184-hTert-L2:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 184-hTert-L2  CEMT0009.gDNA  H3K4me1  signal unstranded  CEMT  A26699:CEMT0009.gDNA:184-hTert-L2:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Brain-Temporal lobe-Left:Brain-Temporal lobe-Left Oligodendroglioma  CEMT0019.gDNA  H3K4me1  peaks bw  CEMT  A33073:CEMT0019.gDNA:Brain-Temporal_lobe-Left:Brain-Temporal_lobe-Left_Oligodendroglioma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Brain-Temporal lobe-Left:Brain-Temporal lobe-Left Oligodendroglioma  CEMT0019.gDNA  H3K4me1  signal unstranded  CEMT  A33073:CEMT0019.gDNA:Brain-Temporal_lobe-Left:Brain-Temporal_lobe-Left_Oligodendroglioma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Brain-Frontal Lobe-Left:Brain-Frontal Lobe-Left Glioblastoma Multiforme-Oligodendroglial component  CEMT0021.gDNA  H3K4me1  peaks bw  CEMT  A33467:CEMT0021.gDNA:Brain-Frontal_Lobe-Left:Brain-Frontal_Lobe-Left_Glioblastoma_Multiforme-Oligodendroglial_component:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Brain-Frontal Lobe-Left:Brain-Frontal Lobe-Left Glioblastoma Multiforme-Oligodendroglial component  CEMT0021.gDNA  H3K4me1  signal unstranded  CEMT  A33467:CEMT0021.gDNA:Brain-Frontal_Lobe-Left:Brain-Frontal_Lobe-Left_Glioblastoma_Multiforme-Oligodendroglial_component:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Brain:Brain Oligodendroglioma-Anaplastic  CEMT0022.gDNA  H3K4me1  peaks bw  CEMT  A33474:CEMT0022.gDNA:Brain:Brain_Oligodendroglioma-Anaplastic:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Brain:Brain Oligodendroglioma-Anaplastic  CEMT0022.gDNA  H3K4me1  signal unstranded  CEMT  A33474:CEMT0022.gDNA:Brain:Brain_Oligodendroglioma-Anaplastic:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Brain:Brain Glioblastoma Multiforme  CEMT0023.gDNA  H3K4me1  peaks bw  CEMT  A33481:CEMT0023.gDNA:Brain:Brain_Glioblastoma_Multiforme:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Brain:Brain Glioblastoma Multiforme  CEMT0023.gDNA  H3K4me1  signal unstranded  CEMT  A33481:CEMT0023.gDNA:Brain:Brain_Glioblastoma_Multiforme:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0004.gDNA  H3K4me1  peaks bw  CEMT  A34019:CEMT0004.gDNA:B_cells:Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0004.gDNA  H3K4me1  signal unstranded  CEMT  A34019:CEMT0004.gDNA:B_cells:Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0005.gDNA  H3K4me1  peaks bw  CEMT  A34035:CEMT0005.gDNA:B_cells:Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0005.gDNA  H3K4me1  signal unstranded  CEMT  A34035:CEMT0005.gDNA:B_cells:Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0006.gDNA  H3K4me1  peaks bw  CEMT  A34074:CEMT0006.gDNA:B_cells:Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 B cells:Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0006.gDNA  H3K4me1  signal unstranded  CEMT  A34074:CEMT0006.gDNA:B_cells:Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0040.gDNA  H3K4me1  peaks bw  CEMT  A34081:CEMT0040.gDNA:Thyroid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0040.gDNA  H3K4me1  signal unstranded  CEMT  A34081:CEMT0040.gDNA:Thyroid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Adenoma-Follicular  CEMT0041.gDNA  H3K4me1  peaks bw  CEMT  A34088:CEMT0041.gDNA:Thyroid:Thyroid_Adenoma-Follicular:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Adenoma-Follicular  CEMT0041.gDNA  H3K4me1  signal unstranded  CEMT  A34088:CEMT0041.gDNA:Thyroid:Thyroid_Adenoma-Follicular:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0042.gDNA  H3K4me1  peaks bw  CEMT  A34380:CEMT0042.gDNA:Thyroid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0042.gDNA  H3K4me1  signal unstranded  CEMT  A34380:CEMT0042.gDNA:Thyroid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Adenoma-Follicular  CEMT0043.gDNA  H3K4me1  peaks bw  CEMT  A34387:CEMT0043.gDNA:Thyroid:Thyroid_Adenoma-Follicular:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Adenoma-Follicular  CEMT0043.gDNA  H3K4me1  signal unstranded  CEMT  A34387:CEMT0043.gDNA:Thyroid:Thyroid_Adenoma-Follicular:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0044.gDNA  H3K4me1  peaks bw  CEMT  A34706:CEMT0044.gDNA:Thyroid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0044.gDNA  H3K4me1  signal unstranded  CEMT  A34706:CEMT0044.gDNA:Thyroid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Goiter  CEMT0045.gDNA  H3K4me1  peaks bw  CEMT  A34713:CEMT0045.gDNA:Thyroid:Thyroid_Goiter:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Goiter  CEMT0045.gDNA  H3K4me1  signal unstranded  CEMT  A34713:CEMT0045.gDNA:Thyroid:Thyroid_Goiter:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Hematopoietic  CEMT0032.gDNA  H3K4me1  peaks bw  CEMT  A34720:CEMT0032.gDNA:Hematopoietic:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Hematopoietic  CEMT0032.gDNA  H3K4me1  signal unstranded  CEMT  A34720:CEMT0032.gDNA:Hematopoietic:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0026.gDNA  H3K4me1  peaks bw  CEMT  A34938:CEMT0026.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0026.gDNA  H3K4me1  signal unstranded  CEMT  A34938:CEMT0026.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0027.gDNA  H3K4me1  peaks bw  CEMT  A34945:CEMT0027.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0027.gDNA  H3K4me1  signal unstranded  CEMT  A34945:CEMT0027.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0028.gDNA  H3K4me1  peaks bw  CEMT  A34952:CEMT0028.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0028.gDNA  H3K4me1  signal unstranded  CEMT  A34952:CEMT0028.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0029.gDNA  H3K4me1  peaks bw  CEMT  A34959:CEMT0029.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0029.gDNA  H3K4me1  signal unstranded  CEMT  A34959:CEMT0029.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0025.gDNA  H3K4me1  peaks bw  CEMT  A35236:CEMT0025.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0025.gDNA  H3K4me1  signal unstranded  CEMT  A35236:CEMT0025.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0030.gDNA  H3K4me1  peaks bw  CEMT  A35243:CEMT0030.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 CD19+ cells (B lymphocytes):Blood-Peripheral Leukemia-Chronic lymphocytic leukemia  CEMT0030.gDNA  H3K4me1  signal unstranded  CEMT  A35243:CEMT0030.gDNA:CD19+_cells_(B_lymphocytes):Blood-Peripheral_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Basal cells  CEMT0035.gDNA  H3K4me1  peaks bw  CEMT  A35250:CEMT0035.gDNA:Basal_cells:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Basal cells  CEMT0035.gDNA  H3K4me1  signal unstranded  CEMT  A35250:CEMT0035.gDNA:Basal_cells:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Stromal cells  CEMT0036.gDNA  H3K4me1  peaks bw  CEMT  A35257:CEMT0036.gDNA:Stromal_cells:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Stromal cells  CEMT0036.gDNA  H3K4me1  signal unstranded  CEMT  A35257:CEMT0036.gDNA:Stromal_cells:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Luminal cells-mature  CEMT0037.gDNA  H3K4me1  peaks bw  CEMT  A35264:CEMT0037.gDNA:Luminal_cells-mature:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Luminal cells-mature  CEMT0037.gDNA  H3K4me1  signal unstranded  CEMT  A35264:CEMT0037.gDNA:Luminal_cells-mature:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Luminal progenitor  CEMT0038.gDNA  H3K4me1  peaks bw  CEMT  A35271:CEMT0038.gDNA:Luminal_progenitor:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Luminal progenitor  CEMT0038.gDNA  H3K4me1  signal unstranded  CEMT  A35271:CEMT0038.gDNA:Luminal_progenitor:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Hematopoietic:Blood Leukemia - Chronic Myeloid  CEMT0031.gDNA  H3K4me1  peaks bw  CEMT  A35991:CEMT0031.gDNA:Hematopoietic:Blood_Leukemia_-_Chronic_Myeloid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Hematopoietic:Blood Leukemia - Chronic Myeloid  CEMT0031.gDNA  H3K4me1  signal unstranded  CEMT  A35991:CEMT0031.gDNA:Hematopoietic:Blood_Leukemia_-_Chronic_Myeloid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Brain-Frontal Lobe-Right:Brain Oligodendroglioma-Anaplastic  CEMT0047.gDNA  H3K4me1  peaks bw  CEMT  A37106:CEMT0047.gDNA:Brain-Frontal_Lobe-Right:Brain_Oligodendroglioma-Anaplastic:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Brain-Frontal Lobe-Right:Brain Oligodendroglioma-Anaplastic  CEMT0047.gDNA  H3K4me1  signal unstranded  CEMT  A37106:CEMT0047.gDNA:Brain-Frontal_Lobe-Right:Brain_Oligodendroglioma-Anaplastic:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right)  CEMT0033.gDNA  H3K4me1  peaks bw  CEMT  A47305:CEMT0033.gDNA:Large_Intestine-Colon-Ascending_(Right):H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right)  CEMT0033.gDNA  H3K4me1  signal unstranded  CEMT  A47305:CEMT0033.gDNA:Large_Intestine-Colon-Ascending_(Right):H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right)  CEMT0034.gDNA  H3K4me1  peaks bw  CEMT  A47312:CEMT0034.gDNA:Large_Intestine-Colon-Ascending_(Right):H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right)  CEMT0034.gDNA  H3K4me1  signal unstranded  CEMT  A47312:CEMT0034.gDNA:Large_Intestine-Colon-Ascending_(Right):H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0050.gDNA  H3K4me1  peaks bw  CEMT  A50434:CEMT0050.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0050.gDNA  H3K4me1  signal unstranded  CEMT  A50434:CEMT0050.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0051.gDNA  H3K4me1  peaks bw  CEMT  A50441:CEMT0051.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0051.gDNA  H3K4me1  signal unstranded  CEMT  A50441:CEMT0051.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right)  CEMT0052.gDNA  H3K4me1  peaks bw  CEMT  A50448:CEMT0052.gDNA:Large_Intestine-Colon-Ascending_(Right):H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right)  CEMT0052.gDNA  H3K4me1  signal unstranded  CEMT  A50448:CEMT0052.gDNA:Large_Intestine-Colon-Ascending_(Right):H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0053.gDNA  H3K4me1  peaks bw  CEMT  A50455:CEMT0053.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0053.gDNA  H3K4me1  signal unstranded  CEMT  A50455:CEMT0053.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0054.gDNA  H3K4me1  peaks bw  CEMT  A50462:CEMT0054.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0054.gDNA  H3K4me1  signal unstranded  CEMT  A50462:CEMT0054.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0055.gDNA  H3K4me1  peaks bw  CEMT  A50469:CEMT0055.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0055.gDNA  H3K4me1  signal unstranded  CEMT  A50469:CEMT0055.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0056.gDNA  H3K4me1  peaks bw  CEMT  A50476:CEMT0056.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0056.gDNA  H3K4me1  signal unstranded  CEMT  A50476:CEMT0056.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0057.gDNA  H3K4me1  peaks bw  CEMT  A50483:CEMT0057.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0057.gDNA  H3K4me1  signal unstranded  CEMT  A50483:CEMT0057.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0058.gDNA  H3K4me1  peaks bw  CEMT  A50612:CEMT0058.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0058.gDNA  H3K4me1  signal unstranded  CEMT  A50612:CEMT0058.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0059.gDNA  H3K4me1  peaks bw  CEMT  A50619:CEMT0059.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0059.gDNA  H3K4me1  signal unstranded  CEMT  A50619:CEMT0059.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0060.gDNA  H3K4me1  peaks bw  CEMT  A50871:CEMT0060.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0060.gDNA  H3K4me1  signal unstranded  CEMT  A50871:CEMT0060.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0061.gDNA  H3K4me1  peaks bw  CEMT  A50878:CEMT0061.gDNA:Large_Intestine-Colon:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon  CEMT0061.gDNA  H3K4me1  signal unstranded  CEMT  A50878:CEMT0061.gDNA:Large_Intestine-Colon:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma  CEMT0063.gDNA  H3K4me1  peaks bw  CEMT  A50885:CEMT0063.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Adenocarcinoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma  CEMT0063.gDNA  H3K4me1  signal unstranded  CEMT  A50885:CEMT0063.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Adenocarcinoma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma  CEMT0064.gDNA  H3K4me1  peaks bw  CEMT  A50892:CEMT0064.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Adenocarcinoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma  CEMT0064.gDNA  H3K4me1  signal unstranded  CEMT  A50892:CEMT0064.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Adenocarcinoma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Carcinoma  CEMT0065.gDNA  H3K4me1  peaks bw  CEMT  A51314:CEMT0065.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Carcinoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Carcinoma  CEMT0065.gDNA  H3K4me1  signal unstranded  CEMT  A51314:CEMT0065.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Carcinoma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid:Large Intestine-Colon Adenocarcinoma  CEMT0066.gDNA  H3K4me1  peaks bw  CEMT  A51321:CEMT0066.gDNA:Large_Intestine-Colon-Rectosigmoid:Large_Intestine-Colon_Adenocarcinoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid:Large Intestine-Colon Adenocarcinoma  CEMT0066.gDNA  H3K4me1  signal unstranded  CEMT  A51321:CEMT0066.gDNA:Large_Intestine-Colon-Rectosigmoid:Large_Intestine-Colon_Adenocarcinoma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma  CEMT0067.gDNA  H3K4me1  peaks bw  CEMT  A51328:CEMT0067.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Adenocarcinoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine-Colon Adenocarcinoma  CEMT0067.gDNA  H3K4me1  signal unstranded  CEMT  A51328:CEMT0067.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine-Colon_Adenocarcinoma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine Adenoma  CEMT0062.gDNA  H3K4me1  peaks bw  CEMT  A52085:CEMT0062.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine_Adenoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Ascending (Right):Large Intestine Adenoma  CEMT0062.gDNA  H3K4me1  signal unstranded  CEMT  A52085:CEMT0062.gDNA:Large_Intestine-Colon-Ascending_(Right):Large_Intestine_Adenoma:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid:Large Intestine Diverticulitis  CEMT0068.gDNA  H3K4me1  peaks bw  CEMT  A55590:CEMT0068.gDNA:Large_Intestine-Colon-Rectosigmoid:Large_Intestine_Diverticulitis:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid:Large Intestine Diverticulitis  CEMT0068.gDNA  H3K4me1  signal unstranded  CEMT  A55590:CEMT0068.gDNA:Large_Intestine-Colon-Rectosigmoid:Large_Intestine_Diverticulitis:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0072.gDNA  H3K4me1  peaks bw  CEMT  A55597:CEMT0072.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Large Intestine-Colon-Rectosigmoid  CEMT0072.gDNA  H3K4me1  signal unstranded  CEMT  A55597:CEMT0072.gDNA:Large_Intestine-Colon-Rectosigmoid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0086.gDNA  H3K4me1  peaks bw  CEMT  A56243:CEMT0086.gDNA:Thyroid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0086.gDNA  H3K4me1  signal unstranded  CEMT  A56243:CEMT0086.gDNA:Thyroid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Carcinoma - Papillary-Classical  CEMT0087.gDNA  H3K4me1  peaks bw  CEMT  A56250:CEMT0087.gDNA:Thyroid:Thyroid_Carcinoma_-_Papillary-Classical:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Carcinoma - Papillary-Classical  CEMT0087.gDNA  H3K4me1  signal unstranded  CEMT  A56250:CEMT0087.gDNA:Thyroid:Thyroid_Carcinoma_-_Papillary-Classical:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 B cells:Blood Leukemia-Chronic lymphocytic leukemia  CEMT0095.gDNA  H3K4me1  peaks bw  CEMT  A60650:CEMT0095.gDNA:B_cells:Blood_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 B cells:Blood Leukemia-Chronic lymphocytic leukemia  CEMT0095.gDNA  H3K4me1  signal unstranded  CEMT  A60650:CEMT0095.gDNA:B_cells:Blood_Leukemia-Chronic_lymphocytic_leukemia:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0088.gDNA  H3K4me1  peaks bw  CEMT  A66368:CEMT0088.gDNA:Thyroid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0088.gDNA  H3K4me1  signal unstranded  CEMT  A66368:CEMT0088.gDNA:Thyroid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0090.gDNA  H3K4me1  peaks bw  CEMT  A66382:CEMT0090.gDNA:Thyroid:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid  CEMT0090.gDNA  H3K4me1  signal unstranded  CEMT  A66382:CEMT0090.gDNA:Thyroid:H3K4me1:sig_u:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Papillary Carcinoma  CEMT0091.gDNA  H3K4me1  peaks bw  CEMT  A66389:CEMT0091.gDNA:Thyroid:Thyroid_Papillary_Carcinoma:H3K4me1:peak:CEMT    Schema 
 
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 Configure 		 Thyroid:Thyroid Papillary Carcinoma  CEMT0091.gDNA  H3K4me1  signal unstranded  CEMT  A66389:CEMT0091.gDNA:Thyroid:Thyroid_Papillary_Carcinoma:H3K4me1:sig_u:CEMT    Schema 
    
www.epigenomes.ca tracks

Description

The tracks available in this set have been generated by the Centre for Epigenome Mapping Technology (CEMT) at Canada's Michael Smith Genome Sciences Centre (BCGSC) as a part of the contribution of Canadian Epigenetics, Environment and Health Research Consortium (CEEHRC) to the International Human Epigenome Consortium (IHEC).

The data tracks represent raw signal generated from aligned reads. Access to the raw data underlying the tracks is controlled via European Bioinformatics Institute. The data will be submitted to CEMT Reference Epigenomes (Study: EGAS00001000552) as it becomes available. More information about the project is available at www.epigenomes.ca.

Sample metadata is available at: CEMT Samples.

Methods

The wet lab protocols used are described in protocols.

The protocol for ChIP-Seq assays was paired end. The raw reads from the sequencing were first split by index and adaptors were trimmed, then fastq files corresponding to the two mate pairs were generated for each index. The reads were aligned to GRCh37-lite reference using Burrows-Wheeler Aligner version 0.5.7 and converted to bam format with SAMtools (version 0.1.13). The bams were annotated using in-house tools (including flagging of chastity failed reads) and the duplicates were marked using Picard Tools' MarkDuplicates.jar (version 1.71).

Compressed wig tracks were generated from bam through in-house tools using ChIP-Seq mode with SAMtools flags "-F 1028 -q 5" and GRCh37-lite chromosome were names changed to UCSC chromosome names. The wig files were converted to bigwigs using UCSC tools.

The command lines used were:

commands
$BWA_PATH/bwa aln -t 16 GRCh37-lite.fa $MATE_1_FASTQ > $MATE_1_SAI
$BWA_PATH/bwa aln -t 16 GRCh37-lite.fa $MATE_2_FASTQ > $MATE_2_SAI
bwa sampe GRCh37-lite.fa $MATE_1_SAI $MATE_2_SAI $MATE_1_FASTQ $MATE_2_FASTQ | samtools view -bt GRCh37-lite.fa.fai - | samtools sort - $SORTED_PREFIX
java -Xms512m -Xmx16g -jar MarkDuplicates.jar I=$ANNOTATED_SORTED_BAM OUTPUT=$DUPLICATES_MARKED METRICS_FILE=$METRICS_FILE ASSUME_SORTED=true READ_NAME_REGEX="[a-zA-Z0-9]+_[0-9]+:[0-9]+:([0-9]+):([0-9]+):([0-9]+).*" OPTICAL_DUPLICATE_PIXEL_DISTANCE=14 VALIDATION_STRINGENCY=LENIENT
export BAM2WIG_OPTS="-F 1028 -q 5 -cp -n $OUTPUT_PREFIX -chr $CHR_BWA2UCSC_NAMES"
java -jar -Xmx10G $BAM2WIG_PATH/BAM2WIG.jar -bamFile $INFILE $BAM2WIG_OPTS -out $OUTPUT_DIRECTORY;
$UCSCTOOLS/wigToBigWig -clip $INFILE $CHROMSIZES/hg19.chrom.sizes $OUTPUT_DIRECTORY/$OUTFILE

Display Scheme

The various assays have been color coded as follows:

MarkColour
ChIP Input  
H3K27ac  
H3K27me3 
H3K36me3 
H3K4me1  
H3K4me3  
H3K9me3  

Where possible information about the tracks and data is included in the title. However, due to constraints on the length of these fields, this is sometimes not possible. The library information for each track is still included as the first field in the colon delimited title string. Please refer to the metadata table included on this page to look up further details by the library.

Note

When analyzing data from different sources, please note that underlying data processing and handling procedures may be different.

Contacts

Please direct any questions to: edcc@bcgsc.ca