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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
469
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
469
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
42
broad histone mark
narrow histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
308
November, 2017
May, 2020
56
December, 2017
53
November, 2018
41
August, 2017
40
May, 2022
31
August, 2021
10
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
465
bam
446
fastq
427
bigWig
390
bed narrowPeak
344
bigBed narrowPeak
57
bed broadPeak
57
bigBed broadPeak
30
tsv
23
tagAlign
11
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
564
Homo sapiens
Biosample type
391
cell line
151
tissue
12
primary cell
10
in vitro differentiated cells
Organ
867
pancreas
650
connective tissue
564
liver
478
adipose tissue
474
epithelium
353
heart
275
kidney
210
vasculature
205
blood vessel
169
brain
135
artery
107
limb
82
musculature of body
71
bone element
68
blood
68
bodily fluid
58
eye
35
nerve
29
embryo
23
spleen
20
lung
18
ureter
16
vein
12
skeleton
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
564
AMP
Genome assembly (visualization)
430
hg19
347
GRCh38
Lab
495
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
assay_title!
RNA microarray
files.file_type!
txt
month_released!
May, 2020
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
564 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
80
24
20
2
3
1
1
1
1
1
right lobe of liver
8
3
1
2
1
2
primary cell
hepatocyte
2
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
10
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