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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
190
total RNA-seq
ATAC-seq
8
snATAC-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
612
DNA binding
194
Transcription
14
DNA accessibility
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
67
November, 2018
63
December, 2017
49
August, 2017
35
August, 2021
28
December, 2018
23
January, 2019
20
May, 2022
8
January, 2021
8
July, 2019
6
October, 2019
5
December, 2019
3
March, 2020
2
February, 2020
2
February, 2021
2
June, 2019
Available data
737
bam
654
bigWig
521
fastq
472
bed narrowPeak
411
bigBed narrowPeak
175
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
csv
1
hdf5
1
vcf
Organism
830
Homo sapiens
Biosample type
459
cell line
336
tissue
20
primary cell
15
in vitro differentiated cells
Organ
761
liver
741
pancreas
652
connective tissue
479
adipose tissue
368
epithelium
336
heart
280
brain
275
kidney
187
vasculature
182
blood vessel
147
bone element
113
limb
96
artery
89
musculature of body
68
blood
68
bodily fluid
42
nerve
37
embryo
32
eye
22
spleen
22
vein
20
lung
18
ureter
5
gonad
5
ovary
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
822
AMP
8
T1D
Genome assembly (visualization)
654
hg19
581
GRCh38
Lab
771
AMP-T2D consortium
31
Bing Ren, UCSD
20
Karen Mohlke, UNC
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA methylation
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
830 results
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ChIP-seq
total RNA-seq
snATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
2
1
GM12878
60
tissue
liver
145
167
2
1
1
1
1
right lobe of liver
10
3
2
2
C1 segment of cervical spinal cord
1
primary cell
hepatocyte
4
5
1
peripheral blood mononuclear cell
8
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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