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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
988
total RNA-seq
623
ChIP-seq
190
ATAC-seq
174
single cell RNA-seq
143
DNase-seq
87
RNA microarray
28
snATAC-seq
25
WGBS
18
pCHi-C
15
Hi-C
12
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1174
Transcription
623
DNA binding
364
DNA accessibility
35
DNA methylation
15
3D chromatin structure
Target of assay
388
histone modification
387
histone
197
broad histone mark
190
narrow histone mark
146
control
91
transcription factor
25
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
223
August, 2021
193
May, 2020
132
June, 2019
120
July, 2018
109
October, 2019
80
April, 2019
74
October, 2018
66
May, 2022
59
July, 2019
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
37
May, 2019
35
March, 2020
28
February, 2023
24
November, 2018
19
April, 2020
15
May, 2023
9
February, 2020
8
January, 2021
7
December, 2018
7
January, 2019
7
October, 2017
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1591
bam
1497
bigWig
1034
tsv
662
bed narrowPeak
380
bigBed narrowPeak
365
fastq
170
bed bed3+
169
bed broadPeak
157
txt
141
bigBed broadPeak
120
tagAlign
64
xls
23
bed bedMethyl
23
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2314
Homo sapiens
Biosample type
2323
tissue
1036
primary cell
596
cell line
394
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
505
pancreas
488
adipose tissue
361
liver
313
heart
299
kidney
brain
158
bone element
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
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
2226
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1548
GRCh38
1512
hg19
Lab
1971
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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:
88
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
brain
blood vessel
eye
BIOSAMPLE
ASSAY
2323 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
278
69
66
6
1
7
3
1
4
1
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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