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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
460
ChIP-seq
46
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
460
DNA binding
50
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
85
control
82
recombinant protein
76
histone modification
75
histone
58
RNA binding protein
broad histone mark
33
narrow histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
307
November, 2017
May, 2020
53
December, 2017
53
November, 2018
40
May, 2022
35
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
459
bam
440
fastq
422
bigWig
385
bed narrowPeak
337
bigBed narrowPeak
55
bed broadPeak
55
bigBed broadPeak
30
tsv
18
tagAlign
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
555
Homo sapiens
Biosample type
391
cell line
143
tissue
13
primary cell
8
in vitro differentiated cells
Organ
868
pancreas
640
connective tissue
555
liver
480
epithelium
471
adipose tissue
339
kidney
336
heart
216
brain
191
vasculature
185
blood vessel
159
bone element
127
artery
88
limb
76
musculature of body
69
blood
69
bodily fluid
61
eye
33
embryo
27
nerve
21
spleen
20
lung
18
ureter
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
555
AMP
Genome assembly (visualization)
425
hg19
341
GRCh38
Lab
485
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:
13
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
month_released!
May, 2020
organ_slims!
skeleton
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
555 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
1
2
2
1
1
tissue
liver
73
24
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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