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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
448
ChIP-seq
160
total RNA-seq
6
DNase-seq
5
WGBS
3
ATAC-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
448
DNA binding
164
Transcription
9
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
82
recombinant protein
76
control
57
RNA binding protein
42
histone modification
41
histone
23
broad histone mark
23
chromatin remodeller
18
narrow histone mark
2
other context
2
other post-translational modification
Date released
303
November, 2017
144
May, 2020
63
December, 2017
53
November, 2018
34
August, 2017
10
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
681
bam
588
bigWig
465
fastq
407
bed narrowPeak
358
bigBed narrowPeak
165
tsv
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
csv
1
hdf5
1
hic
Organism
634
Homo sapiens
Biosample type
358
cell line
251
tissue
15
in vitro differentiated cells
10
primary cell
Organ
706
pancreas
657
connective tissue
634
liver
483
adipose tissue
359
epithelium
347
heart
230
vasculature
224
blood vessel
168
brain
163
kidney
158
bone element
135
artery
122
limb
81
musculature of body
blood
61
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
634
AMP
Genome assembly (visualization)
548
hg19
500
GRCh38
Lab
634
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
16
inconsistent control read length
8
inconsistent control run_type
organ_slims!
blood
files.file_type!
tagAlign
BIOSAMPLE
ASSAY
634 results
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ChIP-seq
total RNA-seq
DNase-seq
WGBS
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
single cell RNA-seq
cell line
HepG2
348
5
1
1
1
2
tissue
liver
75
147
2
3
1
1
1
1
1
right lobe of liver
10
3
2
1
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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