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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
405
ChIP-seq
189
total RNA-seq
23
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
405
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
294
transcription factor
108
control
histone modification
88
histone
82
recombinant protein
54
RNA binding protein
54
narrow histone mark
34
broad histone mark
19
chromatin remodeller
1
other context
1
other post-translational modification
Date released
256
November, 2017
167
May, 2020
50
November, 2018
46
December, 2017
40
May, 2022
29
August, 2021
21
August, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
October, 2019
1
December, 2018
1
February, 2020
Available data
601
bam
539
bigWig
420
fastq
360
bed narrowPeak
323
bigBed narrowPeak
174
tsv
49
bed broadPeak
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
639
Homo sapiens
Biosample type
339
cell line
288
tissue
9
primary cell
3
in vitro differentiated cells
Organ
788
pancreas
639
liver
597
connective tissue
457
adipose tissue
413
epithelium
261
heart
246
kidney
159
bone element
152
vasculature
150
blood vessel
117
artery
68
blood
68
bodily fluid
64
brain
54
eye
37
limb
30
musculature of body
25
embryo
20
lung
18
spleen
17
nerve
16
skeleton
5
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
639
AMP
Genome assembly (visualization)
493
hg19
424
GRCh38
Lab
571
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
histone modification
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
639 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
316
14
1
1
2
2
2
1
tissue
liver
80
167
20
3
1
1
1
1
1
right lobe of liver
5
3
1
1
2
1
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
3
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