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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
510
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
3
pCHi-C
3
small RNA-seq
2
Hi-C
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
510
DNA binding
193
Transcription
29
DNA accessibility
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
307
November, 2017
194
May, 2020
53
December, 2017
52
November, 2018
40
May, 2022
32
August, 2021
31
August, 2017
8
July, 2019
5
December, 2019
5
January, 2019
4
October, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
1
February, 2020
Available data
651
bam
591
bigWig
437
fastq
412
bed narrowPeak
337
bigBed narrowPeak
174
tsv
68
tagAlign
55
bed broadPeak
55
bigBed broadPeak
12
bed bed3+
3
tar
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
740
Homo sapiens
Biosample type
390
cell line
330
tissue
12
primary cell
8
in vitro differentiated cells
Organ
808
pancreas
740
liver
632
connective tissue
464
adipose tissue
422
epithelium
335
kidney
323
heart
214
brain
186
vasculature
181
blood vessel
159
bone element
127
artery
87
limb
69
blood
69
bodily fluid
68
musculature of body
60
eye
33
embryo
27
nerve
20
lung
19
spleen
18
ureter
16
skeleton
12
vein
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
740
AMP
Genome assembly (visualization)
591
hg19
502
GRCh38
Lab
671
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA methylation
target.investigated_as!
broad histone mark
files.file_type!
bedpe bed3+
BIOSAMPLE
ASSAY
740 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
pCHi-C
small RNA-seq
Hi-C
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
2
1
2
1
tissue
liver
123
167
20
2
1
1
1
right lobe of liver
7
3
1
2
2
primary cell
hepatocyte
3
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
8
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