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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
370
total RNA-seq
171
ChIP-seq
133
ATAC-seq
74
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
446
Transcription
171
DNA binding
153
DNA accessibility
53
DNA methylation
7
3D chromatin structure
Target of assay
117
histone
117
histone modification
60
broad histone mark
57
narrow histone mark
39
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
172
August, 2017
157
July, 2018
104
May, 2022
72
September, 2018
55
February, 2023
53
October, 2018
39
April, 2018
39
November, 2019
37
May, 2021
19
September, 2020
11
September, 2017
9
March, 2020
8
January, 2021
7
August, 2020
7
November, 2018
6
February, 2021
6
July, 2019
5
March, 2019
5
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
626
bam
567
bigWig
471
fastq
383
tsv
193
bed narrowPeak
84
bigBed narrowPeak
80
zippedFastqFolder
27
bed bed3+
20
bed broadPeak
tagAlign
6
bed bedMethyl
6
bedpe bed3+
6
bigBed bedMethyl
6
bigBed broadPeak
6
hic
6
txt
3
cool
1
bedpe
Organism
835
Homo sapiens
Biosample type
489
tissue
346
primary cell
cell line
Organ
835
pancreas
662
connective tissue
483
adipose tissue
438
epithelium
335
kidney
316
liver
287
heart
170
vasculature
168
brain
164
blood vessel
159
bone element
122
limb
81
musculature of body
75
artery
61
eye
43
nerve
29
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
653
AMP
152
HPAP
30
T1D
Genome assembly (visualization)
586
hg19
572
GRCh38
Lab
620
AMP-T2D consortium
152
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
5
inconsistent ontology term
4
audit script error
Audit category:
54
missing controlled_by
Audit category:
9
inconsistent control read length
files.file_type!
tagAlign
biosample_type!
cell line
BIOSAMPLE
ASSAY
835 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
284
41
58
7
1
3
4
1
1
body of pancreas
3
35
4
2
4
2
pancreas
2
9
2
4
2
1
1
1
1
endocrine pancreas
16
primary cell
pancreatic alpha cell
52
13
35
12
31
1
pancreatic beta cell
21
13
23
12
16
1
pancreatic acinar cell
4
8
9
12
1
pancreatic ductal cell
4
13
4
10
pancreatic endocrine cell
23
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