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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
327
total RNA-seq
181
ChIP-seq
123
ATAC-seq
80
single cell RNA-seq
51
WGBS
11
snATAC-seq
7
DNase-seq
7
Hi-C
4
MeRIP-seq
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
Assay category
409
Transcription
181
DNA binding
143
DNA accessibility
53
DNA methylation
7
3D chromatin structure
Target of assay
131
histone
131
histone modification
68
broad histone mark
63
narrow histone mark
35
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
188
August, 2017
157
July, 2018
104
May, 2022
72
September, 2018
55
February, 2023
53
October, 2018
May, 2021
39
April, 2018
39
November, 2019
19
September, 2020
September, 2017
9
March, 2020
8
January, 2021
7
August, 2020
7
November, 2018
6
February, 2021
6
July, 2019
5
March, 2019
October, 2017
4
June, 2019
4
November, 2020
3
August, 2018
3
October, 2019
3
October, 2022
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
1
June, 2018
Available data
572
bam
519
bigWig
455
fastq
347
tsv
182
bed narrowPeak
80
zippedFastqFolder
79
bigBed narrowPeak
25
bed bed3+
19
bed broadPeak
16
tagAlign
6
bed bedMethyl
6
bedpe bed3+
6
bigBed bedMethyl
6
bigBed broadPeak
6
hic
6
txt
3
cool
1
bedpe
Organism
791
Homo sapiens
Biosample type
457
tissue
341
primary cell
cell line
Organ
798
pancreas
681
connective tissue
490
adipose tissue
435
epithelium
390
liver
335
kidney
324
heart
270
brain
170
vasculature
164
blood vessel
158
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
27
embryo
24
spleen
22
vein
20
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
616
AMP
152
HPAP
30
T1D
Genome assembly (visualization)
550
hg19
530
GRCh38
Lab
585
AMP-T2D consortium
152
Klaus Kaestner, Upenn
50
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Audit category:
5
inconsistent ontology term
4
audit script error
Audit category:
54
missing controlled_by
Audit category:
9
inconsistent control read length
1
inconsistent assembly
biosample_type!
cell line
month_released!
May, 2021
October, 2017
September, 2017
BIOSAMPLE
ASSAY
798 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
snATAC-seq
DNase-seq
Hi-C
MeRIP-seq
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
tissue
islet of Langerhans
242
44
57
6
7
1
3
4
1
1
body of pancreas
3
35
2
4
2
pancreas
1
16
2
4
2
1
1
1
1
endocrine pancreas
16
primary cell
pancreatic alpha cell
52
13
33
12
31
1
pancreatic beta cell
21
13
21
12
16
1
pancreatic acinar cell
4
8
8
12
1
pancreatic ductal cell
4
13
4
10
pancreatic endocrine cell
23
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