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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
38
total RNA-seq
31
ATAC-seq
10
ChIP-seq
6
MeRIP-seq
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
Hi-C
1
RNA microarray
Assay category
38
Transcription
32
DNA accessibility
10
DNA binding
1
3D chromatin structure
Target of assay
histone
27
histone modification
14
narrow histone mark
13
broad histone mark
9
control
4
transcription factor
3
RNA binding protein
3
nucleotide modification
1
chromatin remodeller
Date released
26
February, 2021
24
May, 2021
15
February, 2023
6
November, 2019
6
November, 2020
5
December, 2017
4
March, 2020
2
August, 2021
2
October, 2019
1
December, 2019
Available data
48
bam
43
bigWig
40
tsv
18
bed narrowPeak
5
fastq
3
bigBed narrowPeak
2
tagAlign
1
bedpe bed3+
1
hic
Organism
90
Homo sapiens
Biosample type
primary cell
67
cell line
15
tissue
9
in vitro differentiated cells
Organ
676
liver
574
connective tissue
502
pancreas
456
adipose tissue
298
kidney
285
heart
158
bone element
145
blood vessel
145
vasculature
119
artery
91
epithelium
77
brain
73
limb
60
blood
60
bodily fluid
57
musculature of body
54
eye
25
embryo
20
lung
19
nerve
18
ureter
16
skeleton
15
spleen
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
89
AMP
2
T1D
Genome assembly (visualization)
57
hg19
42
GRCh38
Lab
85
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
67
inconsistent ontology term
1
audit script error
biosample_type!
primary cell
month_released!
October, 2017
target.investigated_as!
histone
other post-translational modification
BIOSAMPLE
ASSAY
91 results
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total RNA-seq
ATAC-seq
ChIP-seq
MeRIP-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
Hi-C
RNA microarray
cell line
EndoC_BH1
33
19
3
6
2
1
1
glomerular visceral epithelial cell
1
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
in vitro differentiated cells
hepatocyte
3
Hepatic endoderm
2
pancreatic PP cell
2
endothelial cell
1
intermediate endothelial cell
1
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