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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
183
total RNA-seq
100
ChIP-seq
22
ATAC-seq
3
DNase-seq
3
WGBS
3
small RNA-seq
2
Hi-C
2
STARR-seq
2
pCHi-C
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
187
Transcription
100
DNA binding
25
DNA accessibility
4
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
58
histone modification
41
narrow histone mark
31
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
194
May, 2020
40
May, 2022
35
August, 2021
26
August, 2017
10
July, 2019
7
October, 2019
5
December, 2019
3
February, 2021
March, 2020
2
June, 2019
1
February, 2020
Available data
680
bam
621
bigWig
fastq
441
bed narrowPeak
358
bigBed narrowPeak
172
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
1
vcf
Organism
323
Homo sapiens
Biosample type
275
tissue
34
cell line
14
primary cell
Organ
581
connective tissue
461
pancreas
446
adipose tissue
386
heart
352
kidney
323
liver
263
brain
261
epithelium
226
vasculature
223
blood vessel
159
bone element
141
artery
122
limb
89
musculature of body
61
eye
43
nerve
21
vein
19
lung
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
4
gonad
4
ovary
2
pericardium
2
pituitary gland
1
bone marrow
1
lymph node
1
skin of body
1
spinal cord
1
thymus
Project
323
AMP
Genome assembly (visualization)
233
hg19
187
GRCh38
Lab
252
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
assembly!
hg18
files.file_type!
fastq
month_released!
March, 2020
BIOSAMPLE
ASSAY
323 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
WGBS
small RNA-seq
Hi-C
STARR-seq
pCHi-C
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
166
78
20
2
1
1
right lobe of liver
3
1
1
2
cell line
HepG2
9
18
1
1
2
2
1
primary cell
hepatocyte
5
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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