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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
534
ChIP-seq
180
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
single cell RNA-seq
Assay category
534
DNA binding
183
Transcription
29
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
104
control
100
histone modification
99
histone
82
recombinant protein
58
narrow histone mark
57
RNA binding protein
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
53
November, 2018
40
May, 2022
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
August, 2021
3
March, 2020
2
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
681
bam
608
bigWig
465
fastq
427
bed narrowPeak
358
bigBed narrowPeak
165
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
hdf5
1
hic
Organism
759
Homo sapiens
Biosample type
370
cell line
360
tissue
15
in vitro differentiated cells
14
primary cell
Organ
868
pancreas
759
liver
680
connective tissue
491
adipose tissue
454
epithelium
288
kidney
283
brain
260
heart
230
vasculature
224
blood vessel
159
bone element
139
artery
122
limb
95
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
18
ureter
16
skeleton
11
lung
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
stomach
1
urinary bladder
Project
759
AMP
Genome assembly (visualization)
610
hg19
531
GRCh38
Lab
719
AMP-T2D consortium
40
Karen Mohlke, UNC
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_title!
single cell RNA-seq
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
759 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
cell line
HepG2
360
5
1
1
1
2
tissue
liver
145
167
20
2
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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