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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
487
ChIP-seq
185
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
WGBS
3
Hi-C
3
pCHi-C
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
487
DNA binding
186
Transcription
29
DNA accessibility
5
DNA methylation
3
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
chromatin remodeller
2
other context
2
other post-translational modification
Date released
292
November, 2017
194
May, 2020
50
December, 2017
48
November, 2018
40
May, 2022
35
August, 2017
33
August, 2021
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
622
bam
561
bigWig
417
fastq
389
bed narrowPeak
314
bigBed narrowPeak
167
tsv
68
tagAlign
51
bed broadPeak
51
bigBed broadPeak
11
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
vcf
Organism
716
Homo sapiens
Biosample type
372
cell line
326
tissue
11
primary cell
7
in vitro differentiated cells
Organ
862
pancreas
716
liver
620
connective tissue
466
epithelium
459
adipose tissue
328
kidney
311
heart
198
brain
179
vasculature
174
blood vessel
159
bone element
124
artery
83
limb
66
musculature of body
60
eye
59
blood
59
bodily fluid
33
embryo
27
nerve
21
spleen
20
lung
18
ureter
16
skeleton
13
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
716
AMP
Genome assembly (visualization)
563
hg19
475
GRCh38
Lab
646
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
25
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
10
inconsistent control read length
month_released!
July, 2019
target.investigated_as!
broad histone mark
chromatin remodeller
BIOSAMPLE
ASSAY
716 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
349
14
1
1
2
2
2
1
tissue
liver
121
165
20
2
3
1
1
1
1
right lobe of liver
7
1
1
2
primary cell
hepatocyte
3
5
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
7
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