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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1022
total RNA-seq
538
ChIP-seq
221
ATAC-seq
151
DNase-seq
87
RNA microarray
81
single cell RNA-seq
28
snATAC-seq
22
pCHi-C
19
WGBS
15
small RNA-seq
13
Hi-C
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1118
Transcription
538
DNA binding
404
DNA accessibility
29
DNA methylation
13
3D chromatin structure
Target of assay
533
histone modification
532
histone
286
narrow histone mark
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
211
August, 2017
198
October, 2019
193
May, 2020
137
August, 2021
136
June, 2019
120
July, 2018
66
May, 2022
59
February, 2023
57
July, 2019
55
October, 2018
47
September, 2023
45
December, 2017
45
May, 2019
40
November, 2017
40
November, 2019
38
May, 2021
33
March, 2020
26
November, 2018
22
February, 2020
19
April, 2020
15
May, 2023
13
April, 2019
13
October, 2017
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
3
January, 2019
2
January, 2018
1
August, 2022
Available data
1590
bam
1419
bigWig
965
tsv
615
bed narrowPeak
332
fastq
303
bigBed narrowPeak
172
bed bed3+
166
bed broadPeak
162
tagAlign
157
txt
149
bigBed broadPeak
64
xls
18
bed bedMethyl
18
bigBed bedMethyl
8
hic
7
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2213
Homo sapiens
Biosample type
2218
tissue
953
primary cell
577
cell line
337
in vitro differentiated cells
stem cell
Organ
527
connective tissue
468
adipose tissue
464
pancreas
336
liver
289
kidney
heart
195
brain
158
bone element
97
blood vessel
97
vasculature
88
limb
66
musculature of body
59
artery
56
eye
27
nerve
21
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
2121
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1483
GRCh38
1481
hg19
Lab
1906
AMP-T2D consortium
142
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:
22
missing controlled_by
Audit category:
3
inconsistent control read length
biosample_type!
stem cell
organ_slims!
heart
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2218 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
single cell RNA-seq
snATAC-seq
pCHi-C
WGBS
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
57
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
3
liver
167
123
20
2
1
1
3
1
1
1
kidney
49
17
75
13
64
6
1
1
1
bone element
84
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