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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
488
ChIP-seq
189
total RNA-seq
23
ATAC-seq
5
WGBS
3
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
488
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
336
transcription factor
107
control
100
histone modification
99
histone
82
recombinant protein
58
RNA binding protein
narrow histone mark
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
308
November, 2017
167
May, 2020
56
December, 2017
50
November, 2018
40
May, 2022
38
August, 2017
30
August, 2021
9
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
March, 2020
2
February, 2021
1
December, 2018
1
February, 2020
Available data
631
bam
570
bigWig
446
fastq
390
bed narrowPeak
344
bigBed narrowPeak
174
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
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
720
Homo sapiens
Biosample type
391
cell line
311
tissue
10
in vitro differentiated cells
8
primary cell
Organ
850
pancreas
720
liver
624
connective tissue
473
adipose tissue
456
epithelium
323
heart
261
kidney
197
vasculature
194
blood vessel
159
bone element
134
brain
131
artery
71
limb
68
blood
68
bodily fluid
54
eye
49
musculature of body
33
nerve
27
embryo
22
spleen
20
lung
16
skeleton
14
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
720
AMP
Genome assembly (visualization)
562
hg19
481
GRCh38
Lab
651
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:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bed bed3+
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
720 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
1
2
2
1
1
tissue
liver
100
167
20
3
1
1
1
1
1
right lobe of liver
8
3
1
1
2
1
in vitro differentiated cells
hepatocyte
10
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
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