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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
36
total RNA-seq
35
ChIP-seq
31
ATAC-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
36
Transcription
35
DNA binding
32
DNA accessibility
1
3D chromatin structure
Target of assay
25
histone
25
histone modification
13
broad histone mark
12
narrow histone mark
9
control
4
transcription factor
3
RNA binding protein
3
nucleotide modification
1
chromatin remodeller
Date released
26
February, 2021
25
May, 2021
19
December, 2017
16
November, 2019
15
February, 2023
6
November, 2020
2
August, 2021
2
March, 2020
2
October, 2019
1
December, 2019
Available data
71
bam
66
bigWig
43
bed narrowPeak
38
tsv
19
fastq
15
bigBed narrowPeak
3
tagAlign
1
bedpe bed3+
1
hic
Organism
113
Homo sapiens
Biosample type
primary cell
75
cell line
24
in vitro differentiated cells
15
tissue
Organ
777
liver
622
connective tissue
515
pancreas
466
adipose tissue
380
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
114
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
37
embryo
25
spleen
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
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
thymus
1
urinary bladder
Project
114
AMP
T1D
Genome assembly (visualization)
80
hg19
65
GRCh38
Lab
108
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
77
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent control read length
assay_title!
shRNA RNA-seq
award.project!
T1D
biosample_type!
primary cell
month_released!
October, 2018
BIOSAMPLE
ASSAY
114 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
Hi-C
RNA microarray
cell line
EndoC_BH1
31
13
19
6
2
1
1
glomerular visceral epithelial cell
1
1
in vitro differentiated cells
hepatocyte
15
Hepatic endoderm
4
pancreatic PP cell
3
endothelial cell
1
intermediate endothelial cell
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
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