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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
31
ChIP-seq
3
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
31
DNA binding
1
3D chromatin structure
Target of assay
27
histone
27
histone modification
14
narrow histone mark
13
broad histone mark
control
4
transcription factor
3
RNA binding protein
3
nucleotide modification
1
chromatin remodeller
Date released
26
February, 2021
25
May, 2021
16
December, 2017
15
February, 2023
14
November, 2019
5
March, 2020
3
November, 2020
2
August, 2021
2
October, 2019
1
December, 2019
Available data
70
bigWig
69
bam
45
bed narrowPeak
40
tsv
16
fastq
15
bigBed narrowPeak
2
tagAlign
1
bedpe bed3+
1
hic
Organism
108
Homo sapiens
Biosample type
primary cell
74
cell line
20
in vitro differentiated cells
15
tissue
Organ
643
liver
612
connective tissue
559
pancreas
464
adipose tissue
362
heart
309
kidney
240
brain
181
blood vessel
181
vasculature
158
bone element
130
artery
109
epithelium
105
limb
77
musculature of body
56
eye
53
blood
53
bodily fluid
32
nerve
29
embryo
20
lung
18
ureter
17
spleen
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
105
AMP
4
T1D
Genome assembly (visualization)
84
hg19
69
GRCh38
Lab
106
AMP-T2D consortium
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
74
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent control read length
audit.ERROR.category!
inconsistent control
biosample_type!
primary cell
month_released!
January, 2018
target.investigated_as!
control
BIOSAMPLE
ASSAY
109 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
13
3
2
1
1
glomerular visceral epithelial cell
1
1
in vitro differentiated cells
hepatocyte
14
Hepatic endoderm
2
pancreatic PP cell
2
endothelial cell
1
intermediate endothelial cell
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
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