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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
69
ChIP-seq
22
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
69
DNA binding
25
DNA accessibility
4
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
58
histone modification
41
narrow histone mark
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
171
May, 2020
40
May, 2022
30
August, 2021
23
August, 2017
10
July, 2019
7
October, 2019
5
December, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
Available data
609
bigWig
580
bam
441
bed narrowPeak
fastq
358
bigBed narrowPeak
174
tsv
63
bed broadPeak
63
bigBed broadPeak
58
tagAlign
12
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
295
Homo sapiens
Biosample type
252
tissue
30
cell line
13
primary cell
Organ
573
connective tissue
452
pancreas
442
adipose tissue
342
kidney
333
heart
295
liver
254
epithelium
239
brain
210
vasculature
207
blood vessel
159
bone element
132
artery
105
limb
88
musculature of body
60
eye
32
nerve
20
lung
20
vein
18
ureter
16
skeleton
10
embryo
9
blood
9
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
295
AMP
Genome assembly (visualization)
235
hg19
188
GRCh38
Lab
228
AMP-T2D consortium
40
Karen Mohlke, UNC
27
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
files.file_type!
fastq
target.investigated_as!
control
BIOSAMPLE
ASSAY
295 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
52
20
1
2
1
1
1
right lobe of liver
3
1
1
2
cell line
HepG2
9
14
1
1
2
2
1
primary cell
hepatocyte
5
3
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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