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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
184
total RNA-seq
42
ChIP-seq
23
ATAC-seq
3
DNase-seq
3
Hi-C
3
WGBS
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
42
DNA binding
26
DNA accessibility
4
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
histone modification
41
narrow histone mark
31
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
167
May, 2020
40
May, 2022
29
August, 2021
10
July, 2019
6
August, 2017
5
December, 2019
3
February, 2021
3
March, 2020
3
October, 2019
2
June, 2019
1
February, 2020
Available data
601
bam
539
bigWig
fastq
360
bed narrowPeak
323
bigBed narrowPeak
174
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
269
Homo sapiens
Biosample type
227
tissue
31
cell line
11
primary cell
Organ
531
connective tissue
424
pancreas
416
adipose tissue
324
kidney
296
heart
268
liver
225
epithelium
161
vasculature
159
bone element
158
blood vessel
121
artery
88
brain
73
limb
61
musculature of body
58
eye
20
lung
19
nerve
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
7
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
269
AMP
Genome assembly (visualization)
197
hg19
161
GRCh38
Lab
201
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
files.file_type!
fastq
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
269 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
26
20
1
2
1
1
1
right lobe of liver
3
1
1
2
islet of Langerhans
1
cell line
HepG2
9
15
1
1
2
2
1
primary cell
hepatocyte
5
1
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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