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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1006
total RNA-seq
778
ChIP-seq
254
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
15
WGBS
12
Hi-C
5
RRBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
Assay category
1180
Transcription
778
DNA binding
462
DNA accessibility
20
DNA methylation
12
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
187
control
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
261
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
111
May, 2019
95
February, 2023
82
November, 2017
July, 2019
74
April, 2019
66
May, 2022
59
October, 2018
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
25
February, 2020
23
October, 2017
19
April, 2020
19
November, 2018
17
December, 2017
15
May, 2023
8
January, 2021
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
December, 2018
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1754
bam
1581
bigWig
1029
tsv
867
bed narrowPeak
494
bigBed narrowPeak
298
fastq
238
tagAlign
213
bed broadPeak
192
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
11
bed bedMethyl
11
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2562
Homo sapiens
Biosample type
2571
tissue
1047
primary cell
345
in vitro differentiated cells
301
cell line
10
stem cell
Organ
520
connective tissue
482
pancreas
461
adipose tissue
314
liver
294
kidney
254
brain
246
heart
158
bone element
123
blood vessel
123
vasculature
117
limb
75
musculature of body
71
artery
56
eye
43
nerve
20
lung
19
spleen
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2474
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1670
GRCh38
1607
hg19
Lab
2259
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
9
audit script error
Audit category:
8
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
transcription factor
month_released!
July, 2019
BIOSAMPLE
ASSAY
2571 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
RRBS
MeRIP-seq
snDrop-seq
FAIRE-seq
tissue
islet of Langerhans
298
64
68
1
7
4
3
4
1
adipose tissue
382
2
3
1
3
liver
165
108
20
2
1
1
3
1
1
kidney
49
26
75
13
64
6
1
bone element
84
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