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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
612
ChIP-seq
189
total RNA-seq
24
ATAC-seq
8
snATAC-seq
DNase-seq
5
WGBS
4
Hi-C
4
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
612
DNA binding
193
Transcription
32
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
389
transcription factor
114
control
104
histone modification
103
histone
82
recombinant protein
68
RNA binding protein
61
narrow histone mark
42
broad histone mark
33
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
65
November, 2018
63
December, 2017
53
August, 2017
40
May, 2022
35
August, 2021
28
December, 2018
23
January, 2019
10
July, 2019
8
January, 2021
7
October, 2019
5
December, 2019
4
March, 2020
3
February, 2021
1
February, 2020
1
January, 2018
Available data
736
bam
672
bigWig
522
fastq
490
bed narrowPeak
407
bigBed narrowPeak
175
tsv
86
tagAlign
58
bed broadPeak
58
bigBed broadPeak
8
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
855
Homo sapiens
Biosample type
462
cell line
358
tissue
20
primary cell
15
in vitro differentiated cells
Organ
938
pancreas
785
liver
675
connective tissue
505
epithelium
489
adipose tissue
363
heart
273
kidney
254
brain
225
vasculature
221
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
63
musculature of body
57
eye
41
nerve
37
embryo
24
spleen
20
lung
20
vein
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
847
AMP
8
T1D
Genome assembly (visualization)
675
hg19
580
GRCh38
Lab
776
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
2
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_title!
DNase-seq
month_released!
March, 2023
BIOSAMPLE
ASSAY
855 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
2
1
GM12878
60
1
tissue
liver
145
167
20
3
1
1
1
1
1
right lobe of liver
10
3
1
1
2
bladder (urinary bladder)
1
primary cell
hepatocyte
4
5
1
peripheral blood mononuclear cell
8
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
15
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