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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
510
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
510
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
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
307
November, 2017
194
May, 2020
53
December, 2017
52
November, 2018
40
May, 2022
33
August, 2021
31
August, 2017
8
July, 2019
5
December, 2019
5
January, 2019
4
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
651
bam
591
bigWig
437
fastq
412
bed narrowPeak
337
bigBed narrowPeak
174
tsv
68
tagAlign
55
bed broadPeak
55
bigBed broadPeak
12
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
742
Homo sapiens
Biosample type
391
cell line
331
tissue
12
primary cell
8
in vitro differentiated cells
Organ
815
pancreas
742
liver
633
connective tissue
465
adipose tissue
427
epithelium
335
kidney
326
heart
214
brain
188
vasculature
183
blood vessel
159
bone element
127
artery
87
limb
70
musculature of body
69
blood
bodily fluid
60
eye
33
embryo
27
nerve
20
lung
19
spleen
18
ureter
16
skeleton
13
vein
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
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
742
AMP
Genome assembly (visualization)
593
hg19
502
GRCh38
Lab
672
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA methylation
target.investigated_as!
broad histone mark
organ_slims!
bodily fluid
BIOSAMPLE
ASSAY
742 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
369
14
1
2
2
2
1
tissue
liver
123
167
20
2
1
1
1
1
right lobe of liver
7
3
1
2
2
primary cell
hepatocyte
3
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
8
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