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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1015
total RNA-seq
492
ChIP-seq
244
ATAC-seq
174
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
21
pCHi-C
16
small RNA-seq
15
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1205
Transcription
492
DNA binding
450
DNA accessibility
38
DNA methylation
15
3D chromatin structure
Target of assay
425
histone modification
424
histone
244
broad histone mark
narrow histone mark
160
control
89
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
234
August, 2017
229
August, 2021
166
May, 2020
163
June, 2019
120
July, 2018
October, 2019
95
February, 2023
82
May, 2019
77
July, 2019
66
May, 2022
63
October, 2018
57
April, 2019
54
November, 2017
47
September, 2023
46
December, 2017
40
May, 2021
40
November, 2019
38
March, 2020
26
November, 2018
25
February, 2020
21
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
January, 2019
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1584
bam
1425
bigWig
1068
tsv
648
bed narrowPeak
418
bigBed narrowPeak
349
fastq
195
bed bed3+
194
bed broadPeak
172
bigBed broadPeak
157
txt
119
tagAlign
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
2308
Homo sapiens
Biosample type
2315
tissue
948
primary cell
616
cell line
331
in vitro differentiated cells
9
stem cell
Organ
533
connective tissue
475
adipose tissue
470
pancreas
313
liver
287
kidney
244
heart
158
bone element
139
brain
93
blood vessel
93
vasculature
73
musculature of body
51
limb
45
artery
35
eye
23
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
nerve
1
ovary
1
pericardium
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2220
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
1530
GRCh38
1461
hg19
Lab
2003
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:
89
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
3
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
narrow histone mark
month_released!
October, 2019
BIOSAMPLE
ASSAY
2315 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
284
34
55
1
7
3
1
1
4
adipose tissue
382
1
2
3
1
liver
166
100
20
2
1
3
1
1
1
1
kidney
49
15
75
13
64
6
1
1
1
bone element
84
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