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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
489
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
489
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
323
transcription factor
108
control
91
histone modification
90
histone
81
recombinant protein
54
narrow histone mark
52
RNA binding protein
broad histone mark
12
chromatin remodeller
2
other context
2
other post-translational modification
Date released
292
November, 2017
194
May, 2020
53
December, 2017
48
November, 2018
40
May, 2022
34
August, 2017
33
August, 2021
10
July, 2019
5
December, 2019
5
January, 2019
4
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
631
bam
571
bigWig
419
fastq
392
bed narrowPeak
317
bigBed narrowPeak
174
tsv
63
tagAlign
48
bed broadPeak
48
bigBed broadPeak
12
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
728
Homo sapiens
Biosample type
372
cell line
335
tissue
13
primary cell
8
in vitro differentiated cells
Organ
862
pancreas
728
liver
634
connective tissue
475
epithelium
471
adipose tissue
339
kidney
316
heart
216
brain
191
vasculature
185
blood vessel
159
bone element
127
artery
88
limb
76
musculature of body
blood
69
bodily fluid
61
eye
31
embryo
27
nerve
21
spleen
20
lung
18
ureter
16
skeleton
13
vein
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
728
AMP
Genome assembly (visualization)
574
hg19
485
GRCh38
Lab
658
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
organ_slims!
blood
target.investigated_as!
broad histone mark
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
728 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
349
14
1
1
2
2
2
1
tissue
liver
122
167
20
2
3
1
1
1
1
1
right lobe of liver
7
3
1
2
1
2
primary cell
hepatocyte
3
5
1
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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