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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
129
total RNA-seq
70
single cell RNA-seq
67
ATAC-seq
47
WGBS
28
ChIP-seq
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
199
Transcription
69
DNA accessibility
53
DNA methylation
28
DNA binding
8
3D chromatin structure
Target of assay
26
control
5
histone
5
histone modification
4
broad histone mark
3
nucleotide modification
1
narrow histone mark
Date released
80
May, 2022
40
February, 2023
33
April, 2018
33
July, 2018
32
February, 2021
26
September, 2018
20
May, 2021
19
September, 2020
14
October, 2019
13
July, 2019
12
August, 2017
7
August, 2020
6
December, 2019
6
November, 2020
5
March, 2020
4
November, 2019
3
August, 2018
3
August, 2021
3
October, 2022
2
June, 2019
2
November, 2017
2
October, 2018
1
June, 2018
1
May, 2019
Available data
293
bam
281
bigWig
238
fastq
154
tsv
bed narrowPeak
80
zippedFastqFolder
62
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
1
tar
Organism
366
Homo sapiens
Biosample type
300
primary cell
64
cell line
in vitro differentiated cells
3
tissue
Organ
731
pancreas
557
connective tissue
477
adipose tissue
367
epithelium
349
liver
201
heart
171
kidney
151
bone element
103
vasculature
101
blood vessel
83
brain
67
artery
36
musculature of body
30
limb
28
eye
20
lung
16
nerve
15
blood
15
bodily fluid
11
spleen
9
vein
8
embryo
8
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
213
AMP
152
HPAP
2
T1D
Genome assembly (visualization)
164
hg19
154
GRCh38
Lab
209
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
66
inconsistent ontology term
5
audit script error
files.file_type!
bed narrowPeak
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
367 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
WGBS
ChIP-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
primary cell
pancreatic alpha cell
52
12
29
31
6
1
pancreatic beta cell
21
12
16
16
6
1
pancreatic acinar cell
4
12
4
1
pancreatic ductal cell
4
10
pancreatic delta cell
11
+ See 16 more…
cell line
EndoC_BH1
33
18
2
1
6
2
1
glomerular visceral epithelial cell
1
tissue
pigmented layer of retina
2
renal glomerulus
1
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