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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
594
ChIP-seq
184
total RNA-seq
24
ATAC-seq
8
snATAC-seq
6
DNase-seq
5
WGBS
3
pCHi-C
3
small RNA-seq
2
Hi-C
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
594
DNA binding
188
Transcription
38
DNA accessibility
7
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
375
transcription factor
111
control
103
histone modification
102
histone
82
recombinant protein
62
RNA binding protein
60
narrow histone mark
42
broad histone mark
27
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
68
November, 2018
63
December, 2017
54
August, 2017
40
May, 2022
34
August, 2021
28
December, 2018
January, 2019
10
July, 2019
8
January, 2021
7
October, 2019
5
December, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
February, 2020
1
January, 2018
Available data
718
bam
657
bigWig
502
fastq
480
bed narrowPeak
397
bigBed narrowPeak
169
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
835
Homo sapiens
Biosample type
438
cell line
360
tissue
22
primary cell
15
in vitro differentiated cells
Organ
939
pancreas
784
liver
683
connective tissue
519
epithelium
490
adipose tissue
390
heart
354
kidney
286
brain
234
vasculature
228
blood vessel
159
bone element
141
artery
122
limb
94
musculature of body
61
eye
51
blood
51
bodily fluid
43
nerve
37
embryo
21
vein
20
lung
18
spleen
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
827
AMP
8
T1D
Genome assembly (visualization)
658
hg19
565
GRCh38
Lab
757
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bedpe bed3+
month_released!
January, 2019
BIOSAMPLE
ASSAY
835 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
9
1
1
2
1
2
1
GM12878
42
1
tissue
liver
145
167
20
2
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
primary cell
hepatocyte
4
5
1
1
peripheral blood mononuclear cell
8
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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