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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
547
ChIP-seq
222
ATAC-seq
173
DNase-seq
168
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
WGBS
24
pCHi-C
16
small RNA-seq
15
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1214
Transcription
547
DNA binding
427
DNA accessibility
36
DNA methylation
15
3D chromatin structure
Target of assay
539
histone modification
538
histone
291
narrow histone mark
broad histone mark
171
control
86
transcription factor
20
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
223
August, 2021
211
August, 2017
193
May, 2020
191
October, 2019
160
June, 2019
120
July, 2018
70
July, 2019
66
May, 2022
60
February, 2023
55
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
40
May, 2021
40
November, 2017
40
November, 2019
37
March, 2020
31
May, 2019
26
November, 2018
22
February, 2020
19
April, 2020
15
May, 2023
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
1634
bam
1465
bigWig
1062
tsv
647
bed narrowPeak
332
fastq
331
bigBed narrowPeak
194
bed bed3+
188
bed broadPeak
171
bigBed broadPeak
162
tagAlign
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2352
Homo sapiens
Biosample type
2357
tissue
944
primary cell
577
cell line
338
in vitro differentiated cells
9
stem cell
Organ
527
connective tissue
468
adipose tissue
464
pancreas
336
liver
289
kidney
236
heart
195
brain
158
bone element
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
2260
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1528
GRCh38
1523
hg19
Lab
2045
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
organ_slims!
blood vessel
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2357 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
298
57
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
123
20
2
1
3
1
1
1
1
kidney
49
17
75
13
64
6
1
1
1
bone element
84
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