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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
67
total RNA-seq
57
ChIP-seq
54
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
8
Hi-C
6
WGBS
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
67
Transcription
65
DNA accessibility
57
DNA binding
8
3D chromatin structure
8
DNA methylation
Target of assay
53
control
9
histone
9
histone modification
5
broad histone mark
5
nucleotide modification
4
narrow histone mark
Date released
May, 2022
56
February, 2023
29
August, 2017
24
November, 2019
18
May, 2021
16
September, 2020
11
October, 2018
10
November, 2020
10
October, 2019
8
January, 2021
6
February, 2021
6
September, 2017
5
March, 2019
4
August, 2021
4
July, 2018
4
March, 2020
3
October, 2022
2
July, 2019
1
August, 2022
1
February, 2020
1
May, 2019
Available data
665
bam
bigWig
447
fastq
417
tsv
196
bed narrowPeak
91
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
3
cool
1
bedpe
1
hdf5
Organism
217
Homo sapiens
Biosample type
108
tissue
74
primary cell
36
cell line
1
in vitro differentiated cells
Organ
223
kidney
219
pancreas
169
heart
149
liver
143
epithelium
114
connective tissue
101
bone element
81
vasculature
80
blood vessel
66
adipose tissue
64
brain
56
artery
55
eye
31
limb
26
musculature of body
20
lung
16
skeleton
14
blood
14
bodily fluid
12
nerve
9
spleen
8
embryo
7
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
129
AMP
62
HPAP
28
T1D
Genome assembly (visualization)
33
hg19
24
GRCh38
Lab
113
AMP-T2D consortium
62
Klaus Kaestner, Upenn
27
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
4
audit script error
files.file_type!
bigWig
month_released!
May, 2022
BIOSAMPLE
ASSAY
219 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
MeRIP-seq
Hi-C
WGBS
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
12
21
37
7
4
3
1
pancreas
1
3
4
1
1
1
body of pancreas
1
9
endocrine pancreas
2
primary cell
pancreatic alpha cell
42
6
1
6
pancreatic beta cell
11
6
1
pancreatic acinar cell
1
cell line
EndoC_BH1
2
17
6
1
2
1
Panc1
7
in vitro differentiated cells
pancreatic PP cell
1
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