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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
967
total RNA-seq
784
ChIP-seq
151
DNase-seq
146
ATAC-seq
87
RNA microarray
76
single cell RNA-seq
22
pCHi-C
22
snATAC-seq
19
WGBS
15
small RNA-seq
12
Hi-C
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1058
Transcription
784
DNA binding
323
DNA accessibility
29
DNA methylation
12
3D chromatin structure
Target of assay
533
histone modification
532
histone
286
narrow histone mark
246
broad histone mark
171
control
82
transcription factor
18
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
234
October, 2019
193
May, 2020
136
June, 2019
120
July, 2018
94
May, 2019
82
November, 2017
74
October, 2018
66
May, 2022
59
February, 2023
57
July, 2019
48
December, 2017
47
September, 2023
40
November, 2019
38
May, 2021
33
March, 2020
26
November, 2018
23
April, 2019
23
October, 2017
22
February, 2020
19
April, 2020
9
August, 2021
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1775
bam
1615
bigWig
965
tsv
747
bed narrowPeak
473
bigBed narrowPeak
377
fastq
238
tagAlign
186
bed broadPeak
178
bed bed3+
149
bigBed broadPeak
100
txt
18
bed bedMethyl
18
bigBed bedMethyl
7
bedpe bed3+
7
hic
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2313
Homo sapiens
Biosample type
2322
tissue
1074
primary cell
596
cell line
393
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
505
pancreas
488
adipose tissue
361
liver
heart
265
brain
158
bone element
157
kidney
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2225
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1641
hg19
1593
GRCh38
Lab
2152
AMP-T2D consortium
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, 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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
bone marrow
heart
lab.title!
Katalin Susztak, Upenn
BIOSAMPLE
ASSAY
2322 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
RNA microarray
single cell RNA-seq
pCHi-C
snATAC-seq
WGBS
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
71
1
68
6
4
7
3
1
1
4
adipose tissue
382
2
3
1
3
liver
167
145
2
20
1
1
3
1
1
1
kidney
27
13
53
1
1
bone element
84
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