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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
5
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
450
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
3D chromatin structure
1
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
53
November, 2018
46
December, 2017
40
May, 2022
28
August, 2021
22
August, 2017
9
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
2
October, 2019
1
February, 2020
Available data
602
bam
539
bigWig
420
fastq
361
bed narrowPeak
323
bigBed narrowPeak
174
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
9
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
csv
1
vcf
Organism
685
Homo sapiens
Biosample type
381
cell line
291
tissue
10
primary cell
3
in vitro differentiated cells
Organ
786
pancreas
685
liver
605
connective tissue
459
adipose tissue
423
epithelium
323
kidney
288
heart
160
vasculature
159
bone element
155
blood vessel
121
artery
96
brain
69
limb
68
blood
68
bodily fluid
58
eye
57
musculature of body
25
embryo
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
5
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
685
AMP
Genome assembly (visualization)
540
hg19
462
GRCh38
Lab
618
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
target.investigated_as!
histone
assay_slims!
3D chromatin structure
BIOSAMPLE
ASSAY
685 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
360
14
1
1
2
2
1
tissue
liver
81
167
20
2
3
1
1
1
1
right lobe of liver
5
3
1
2
1
2
primary cell
hepatocyte
1
5
1
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
3
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