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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1029
total RNA-seq
648
ChIP-seq
164
ATAC-seq
162
DNase-seq
16
small RNA-seq
15
Hi-C
9
RRBS
4
FAIRE-seq
2
Capture-C
2
pCHi-C
1
snATAC-seq
Assay category
1045
Transcription
648
DNA binding
331
DNA accessibility
15
3D chromatin structure
9
DNA methylation
Target of assay
515
histone modification
514
histone
279
narrow histone mark
234
broad histone mark
125
transcription factor
28
RNA binding protein
8
control
5
chromatin remodeller
3
other context
3
other post-translational modification
Date released
478
February, 2021
229
August, 2017
171
October, 2019
170
May, 2020
147
June, 2019
127
May, 2021
116
July, 2018
93
May, 2019
74
December, 2017
65
April, 2019
60
July, 2019
45
February, 2023
45
November, 2019
45
October, 2018
39
May, 2022
34
August, 2021
31
February, 2018
24
March, 2020
17
November, 2018
13
October, 2017
6
April, 2018
6
January, 2019
6
November, 2017
3
December, 2018
3
March, 2019
2
January, 2018
2
September, 2017
1
May, 2023
Available data
1912
bam
1901
bigWig
1045
tsv
908
bed narrowPeak
510
bigBed narrowPeak
412
fastq
214
bed bed3+
197
bed broadPeak
161
bigBed broadPeak
122
tagAlign
15
bedpe bed3+
15
hic
10
bed bed3
9
bed bedMethyl
9
bigBed bedMethyl
7
bed bedgraph
4
txt
2
ibed
1
bedpe
1
tagAlign bed3+
Organism
2046
Homo sapiens
Biosample type
1755
tissue
628
primary cell
530
cell line
297
in vitro differentiated cells
3
stem cell
Organ
555
connective tissue
424
adipose tissue
415
pancreas
282
liver
143
brain
114
heart
96
limb
92
kidney
70
blood vessel
70
bone element
70
vasculature
61
musculature of body
32
epithelium
31
nerve
30
eye
27
artery
21
embryo
18
ureter
14
spleen
12
skeleton
1
pericardium
1
pituitary gland
Project
2050
AMP
2
T1D
Genome assembly (visualization)
2124
GRCh38
2052
hg19
4
hg18
Lab
1997
AMP-T2D consortium
23
Kyle Gaulton, UCSD
20
Karen Mohlke, UNC
7
Struan F.A. Grant, CHOP
2
Bing Ren, UCSD
1
Katalin Susztak, Upenn
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
112
inconsistent ontology term
27
inconsistent control
1
audit script error
Audit category:
30
missing controlled_by
Audit category:
23
inconsistent control read length
1
inconsistent assembly
BIOSAMPLE
ASSAY
2052 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
small RNA-seq
Hi-C
RRBS
FAIRE-seq
Capture-C
pCHi-C
snATAC-seq
tissue
adipose tissue
382
1
3
islet of Langerhans
266
31
42
1
2
1
1
liver
147
83
20
2
1
1
1
bone tissue
58
heart left ventricle
3
29
2
3
1
1
+ See 141 more…
in vitro differentiated cells
adipocyte
4
48
8
1
1
cardiomyocytes
59
3
neural progenitor cell
7
12
10
cardiac precursors (cardiac muscle cell)
19
1
1
pancreatic endoderm
4
13
+ See 30 more…
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