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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
37
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
38
Transcription
37
DNA binding
32
DNA accessibility
1
3D chromatin structure
Target of assay
27
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
26
May, 2021
19
December, 2017
16
November, 2019
15
February, 2023
6
November, 2020
5
March, 2020
2
August, 2021
2
October, 2019
1
December, 2019
Available data
75
bam
70
bigWig
45
bed narrowPeak
40
tsv
19
fastq
15
bigBed narrowPeak
3
tagAlign
1
bedpe bed3+
1
hic
Organism
117
Homo sapiens
Biosample type
primary cell
79
cell line
24
in vitro differentiated cells
15
tissue
Organ
777
liver
622
connective tissue
549
pancreas
466
adipose tissue
380
heart
318
kidney
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
118
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
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
114
AMP
4
T1D
Genome assembly (visualization)
84
hg19
69
GRCh38
Lab
112
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
81
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent control read length
assay_title!
shRNA RNA-seq
biosample_type!
primary cell
month_released!
October, 2018
organ_slims!
brain
BIOSAMPLE
ASSAY
118 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
33
15
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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