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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
356
total RNA-seq
136
ATAC-seq
80
single cell RNA-seq
47
ChIP-seq
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
8
DNase-seq
2
Capture-C
2
FAIRE-seq
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
438
Transcription
157
DNA accessibility
DNA methylation
47
DNA binding
9
3D chromatin structure
Target of assay
histone
149
histone modification
78
broad histone mark
71
narrow histone mark
52
control
transcription factor
9
RNA binding protein
5
nucleotide modification
Date released
157
July, 2018
115
August, 2017
63
May, 2022
May, 2021
56
February, 2023
44
November, 2019
40
September, 2018
39
April, 2018
26
February, 2021
19
September, 2020
13
October, 2018
11
March, 2020
11
October, 2019
11
September, 2017
10
November, 2020
8
January, 2021
7
August, 2020
5
March, 2019
5
October, 2017
4
August, 2021
4
July, 2019
4
June, 2019
3
August, 2018
3
November, 2018
3
October, 2022
1
August, 2022
1
February, 2020
1
June, 2018
1
May, 2019
Available data
488
bam
418
bigWig
371
tsv
344
fastq
74
bed narrowPeak
39
zippedFastqFolder
32
bigBed narrowPeak
10
bed bed3+
9
bed broadPeak
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
txt
3
cool
2
tagAlign
1
bedpe
1
hdf5
Organism
663
Homo sapiens
Biosample type
372
tissue
241
primary cell
52
cell line
Organ
665
pancreas
557
connective tissue
436
adipose tissue
346
epithelium
344
liver
310
kidney
266
heart
158
bone element
153
vasculature
150
blood vessel
116
artery
94
brain
72
limb
57
musculature of body
56
eye
20
embryo
20
lung
19
nerve
18
ureter
17
blood
17
bodily fluid
16
skeleton
11
spleen
7
vein
2
intestine
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
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
530
AMP
105
HPAP
30
T1D
Genome assembly (visualization)
455
hg19
436
GRCh38
Lab
492
AMP-T2D consortium
105
Klaus Kaestner, Upenn
50
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
48
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_slims!
DNA methylation
month_released!
May, 2021
target.investigated_as!
histone
transcription factor
BIOSAMPLE
ASSAY
665 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
MeRIP-seq
Hi-C
DNase-seq
Capture-C
FAIRE-seq
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
242
58
6
13
7
4
3
1
1
body of pancreas
3
4
9
4
2
pancreas
1
3
4
1
2
1
1
endocrine pancreas
2
primary cell
pancreatic alpha cell
52
35
12
6
1
pancreatic beta cell
21
23
12
6
1
pancreatic acinar cell
4
9
12
1
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
29
3
2
6
1
2
1
Panc1
6
1
1
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