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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
189
total RNA-seq
133
ChIP-seq
22
ATAC-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
193
Transcription
133
DNA binding
23
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
108
control
68
histone modification
histone
46
narrow histone mark
24
transcription factor
21
broad histone mark
3
RNA binding protein
1
recombinant protein
Date released
167
May, 2020
64
November, 2017
40
May, 2022
29
August, 2021
21
August, 2017
13
December, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
November, 2018
2
October, 2019
1
December, 2018
1
February, 2020
Available data
602
bam
540
bigWig
421
fastq
361
bed narrowPeak
bigBed narrowPeak
174
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
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
366
Homo sapiens
Biosample type
253
tissue
103
cell line
9
primary cell
1
in vitro differentiated cells
Organ
753
pancreas
587
connective tissue
450
adipose tissue
384
epithelium
366
liver
253
heart
242
kidney
159
bone element
148
vasculature
146
blood vessel
116
artery
63
brain
53
eye
37
limb
30
musculature of body
25
embryo
20
lung
17
nerve
16
skeleton
15
blood
15
bodily fluid
12
spleen
4
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
366
AMP
Genome assembly (visualization)
224
hg19
171
GRCh38
Lab
298
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
target.investigated_as!
histone
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
366 results
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total RNA-seq
ChIP-seq
ATAC-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
48
20
3
1
1
1
1
1
right lobe of liver
3
3
1
2
1
cell line
HepG2
14
80
1
1
2
2
2
1
primary cell
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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