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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
94
ATAC-seq
73
total RNA-seq
61
ChIP-seq
47
WGBS
11
snATAC-seq
10
MeRIP-seq
8
Hi-C
2
Capture-C
2
FAIRE-seq
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
107
DNA accessibility
73
Transcription
61
DNA binding
49
DNA methylation
8
3D chromatin structure
Target of assay
51
control
15
histone
15
histone modification
9
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
104
May, 2022
56
February, 2023
36
August, 2017
18
May, 2021
16
September, 2020
11
October, 2018
11
October, 2019
10
November, 2020
8
January, 2021
8
March, 2020
6
February, 2021
4
August, 2021
4
July, 2018
4
November, 2019
4
September, 2017
3
March, 2019
3
October, 2022
2
July, 2019
1
August, 2022
1
February, 2020
1
May, 2019
1
November, 2018
Available data
114
fastq
80
zippedFastqFolder
68
bam
26
bed narrowPeak
12
bigWig
11
tagAlign
11
tsv
7
bed broadPeak
7
bedpe bed3+
7
hic
6
txt
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
2
bigBed narrowPeak
1
bedpe
Organism
310
Homo sapiens
Biosample type
154
primary cell
120
tissue
37
cell line
1
in vitro differentiated cells
Organ
311
pancreas
258
liver
230
epithelium
147
kidney
127
heart
118
connective tissue
93
bone element
69
brain
67
adipose tissue
55
eye
45
vasculature
43
blood vessel
43
musculature of body
26
limb
20
lung
15
blood
15
bodily fluid
13
artery
12
nerve
10
vein
9
spleen
8
embryo
8
skeleton
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
142
AMP
142
HPAP
28
T1D
Genome assembly (visualization)
658
hg19
GRCh38
Lab
142
Klaus Kaestner, Upenn
104
AMP-T2D consortium
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
29
inconsistent ontology term
4
audit script error
assembly!
GRCh38
assay_title!
STARR-seq
BIOSAMPLE
ASSAY
312 results
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ATAC-seq
total RNA-seq
ChIP-seq
WGBS
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
FAIRE-seq
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
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
37
18
25
7
4
3
1
1
pancreas
1
3
4
1
1
1
1
body of pancreas
1
9
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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