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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
534
ChIP-seq
159
total RNA-seq
6
DNase-seq
3
ATAC-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
1
single cell RNA-seq
Assay category
534
DNA binding
163
Transcription
9
DNA accessibility
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
104
control
100
histone modification
99
histone
82
recombinant protein
58
narrow histone mark
57
RNA binding protein
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
52
November, 2018
50
August, 2017
8
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
August, 2021
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
February, 2020
Available data
680
bam
587
bigWig
462
fastq
407
bed narrowPeak
358
bigBed narrowPeak
164
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
712
Homo sapiens
Biosample type
369
cell line
315
tissue
15
in vitro differentiated cells
13
primary cell
Organ
718
pancreas
712
liver
670
connective tissue
483
adipose tissue
360
epithelium
340
heart
272
brain
230
vasculature
225
blood vessel
159
kidney
158
bone element
139
artery
118
limb
88
musculature of body
61
blood
61
bodily fluid
59
eye
42
nerve
37
embryo
23
spleen
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
thymus
1
urinary bladder
Project
712
AMP
Genome assembly (visualization)
588
hg19
530
GRCh38
Lab
712
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA methylation
month_released!
February, 2020
BIOSAMPLE
ASSAY
712 results
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ChIP-seq
total RNA-seq
DNase-seq
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
single cell RNA-seq
cell line
HepG2
360
5
1
1
2
tissue
liver
145
147
2
1
1
1
1
right lobe of liver
10
2
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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