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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
450
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
Assay category
450
DNA binding
193
Transcription
29
DNA accessibility
DNA methylation
4
3D chromatin structure
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
167
May, 2020
52
November, 2018
46
December, 2017
40
May, 2022
28
August, 2021
18
August, 2017
8
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
2
October, 2019
1
December, 2018
1
February, 2020
Available data
601
bam
539
bigWig
418
fastq
361
bed narrowPeak
323
bigBed narrowPeak
174
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
Organism
681
Homo sapiens
Biosample type
381
cell line
287
tissue
10
primary cell
3
in vitro differentiated cells
Organ
681
liver
607
pancreas
598
connective tissue
453
adipose tissue
286
heart
273
kidney
271
epithelium
162
vasculature
158
blood vessel
158
bone element
121
artery
97
brain
72
limb
60
blood
60
bodily fluid
57
eye
57
musculature of body
25
embryo
19
nerve
18
ureter
17
spleen
16
skeleton
7
vein
2
intestine
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
lung
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
681
AMP
Genome assembly (visualization)
541
hg19
461
GRCh38
Lab
614
AMP-T2D consortium
40
Karen Mohlke, UNC
27
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA methylation
DNA sequencing
target.investigated_as!
histone
BIOSAMPLE
ASSAY
681 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
cell line
HepG2
360
14
1
2
2
2
tissue
liver
81
167
20
2
1
1
1
1
right lobe of liver
5
3
1
2
2
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
3
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