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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
529
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
529
DNA binding
193
Transcription
29
DNA accessibility
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
194
May, 2020
60
December, 2017
50
August, 2017
47
November, 2018
40
May, 2022
35
August, 2021
8
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
657
bam
598
bigWig
439
fastq
418
bed narrowPeak
335
bigBed narrowPeak
174
tsv
86
tagAlign
59
bed broadPeak
59
bigBed broadPeak
13
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
761
Homo sapiens
Biosample type
380
cell line
354
tissue
14
in vitro differentiated cells
13
primary cell
Organ
893
pancreas
761
liver
675
connective tissue
485
adipose tissue
470
epithelium
383
heart
350
kidney
284
brain
233
vasculature
228
blood vessel
159
bone element
141
artery
121
limb
90
musculature of body
60
eye
59
blood
59
bodily fluid
43
nerve
37
embryo
23
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
761
AMP
Genome assembly (visualization)
600
hg19
509
GRCh38
Lab
690
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
25
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
16
inconsistent control read length
assay_slims!
DNA methylation
organ_slims!
large intestine
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
761 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
358
14
1
2
2
2
1
tissue
liver
143
167
20
2
1
1
1
1
right lobe of liver
10
3
1
2
2
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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