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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
92
ATAC-seq
73
total RNA-seq
63
ChIP-seq
47
WGBS
11
snATAC-seq
10
MeRIP-seq
8
Hi-C
2
Capture-C
2
FAIRE-seq
2
RRBS
2
pCHi-C
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
105
DNA accessibility
73
Transcription
63
DNA binding
49
DNA methylation
8
3D chromatin structure
Target of assay
59
control
9
histone
9
histone modification
5
broad histone mark
5
nucleotide modification
4
narrow histone mark
Date released
104
May, 2022
56
February, 2023
30
August, 2017
18
May, 2021
16
September, 2020
11
October, 2018
10
November, 2020
10
October, 2019
9
March, 2020
8
January, 2021
6
February, 2021
4
August, 2021
4
December, 2018
4
July, 2018
4
November, 2018
4
November, 2019
4
September, 2017
3
October, 2022
2
July, 2019
2
March, 2019
1
August, 2022
1
February, 2020
1
January, 2019
1
May, 2019
Available data
122
fastq
80
zippedFastqFolder
76
bam
26
bed narrowPeak
12
bigWig
12
tsv
11
tagAlign
bed broadPeak
7
bedpe bed3+
7
hic
6
txt
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
2
bigBed narrowPeak
1
bedpe
Organism
311
Homo sapiens
Biosample type
154
primary cell
121
tissue
37
cell line
1
in vitro differentiated cells
Organ
304
pancreas
246
liver
228
epithelium
149
kidney
127
heart
117
connective tissue
93
bone element
68
brain
66
adipose tissue
55
eye
43
vasculature
41
blood vessel
30
musculature of body
26
limb
20
lung
15
blood
15
bodily fluid
13
artery
12
nerve
9
spleen
8
embryo
8
skeleton
8
vein
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
143
AMP
142
HPAP
28
T1D
Genome assembly (visualization)
653
hg19
GRCh38
Lab
142
Klaus Kaestner, Upenn
106
AMP-T2D consortium
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
Audit category:
29
inconsistent ontology term
4
audit script error
files.file_type!
bed broadPeak
assembly!
GRCh38
BIOSAMPLE
ASSAY
313 results
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Clear Filters
ATAC-seq
total RNA-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
FAIRE-seq
RRBS
pCHi-C
CRISPR genome editing followed by sgRNA sequencing
primary cell
pancreatic alpha cell
22
42
6
31
1
pancreatic beta cell
13
11
6
16
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
35
18
19
7
4
3
1
1
pancreas
1
3
4
1
1
1
1
body of pancreas
1
9
spleen
8
1
endocrine pancreas
2
cell line
EndoC_BH1
18
2
6
1
2
1
Panc1
7
in vitro differentiated cells
pancreatic PP cell
1
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