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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
61
ATAC-seq
48
ChIP-seq
13
total RNA-seq
10
MeRIP-seq
5
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
1
snATAC-seq
Assay category
62
DNA accessibility
48
DNA binding
13
Transcription
5
3D chromatin structure
2
DNA methylation
Target of assay
53
control
histone
9
histone modification
5
broad histone mark
5
nucleotide modification
4
narrow histone mark
Date released
24
May, 2022
24
November, 2019
21
August, 2017
18
May, 2021
11
October, 2018
10
November, 2020
9
October, 2019
6
September, 2017
5
March, 2019
4
August, 2021
4
July, 2018
2
July, 2019
2
March, 2020
1
August, 2022
1
February, 2020
1
February, 2023
1
May, 2019
Available data
550
bam
bigWig
409
tsv
302
fastq
87
bed narrowPeak
42
bigBed narrowPeak
17
bed bed3+
9
bed broadPeak
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
4
tagAlign
1
bedpe
1
hdf5
Organism
142
Homo sapiens
Biosample type
96
tissue
35
cell line
12
primary cell
1
in vitro differentiated cells
Organ
176
kidney
169
heart
149
liver
144
pancreas
100
bone element
78
epithelium
78
vasculature
77
blood vessel
70
connective tissue
56
artery
53
eye
43
brain
36
adipose tissue
30
limb
22
musculature of body
16
skeleton
12
nerve
9
spleen
7
embryo
6
blood
6
bodily fluid
4
vein
2
intestine
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
lung
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
144
AMP
139
HPAP
28
T1D
Genome assembly (visualization)
48
hg19
24
GRCh38
Lab
102
AMP-T2D consortium
25
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Audit category:
28
inconsistent ontology term
1
audit script error
files.file_type!
bigWig
month_released!
October, 2022
target.investigated_as!
histone
BIOSAMPLE
ASSAY
144 results
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ATAC-seq
ChIP-seq
total RNA-seq
MeRIP-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
snATAC-seq
tissue
islet of Langerhans
44
13
11
4
3
1
1
body of pancreas
9
1
pancreas
3
1
1
1
1
endocrine pancreas
2
cell line
EndoC_BH1
17
2
6
1
2
1
Panc1
6
primary cell
pancreatic alpha cell
6
pancreatic beta cell
6
in vitro differentiated cells
pancreatic PP cell
1
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