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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
625
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
3
snDrop-seq
2
MeRIP-seq
Assay category
1214
Transcription
625
DNA binding
427
DNA accessibility
36
DNA methylation
15
3D chromatin structure
Target of assay
539
histone modification
538
histone
291
narrow histone mark
247
broad histone mark
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
255
August, 2017
223
August, 2021
194
October, 2019
170
May, 2020
160
June, 2019
120
July, 2018
70
July, 2019
70
November, 2017
66
April, 2019
66
May, 2022
60
February, 2023
54
May, 2019
47
September, 2023
45
October, 2018
40
May, 2021
40
November, 2019
37
March, 2020
36
December, 2017
23
November, 2018
22
February, 2020
20
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
6
January, 2019
5
March, 2019
3
December, 2018
3
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1669
bam
1662
bigWig
1062
tsv
844
bed narrowPeak
499
bigBed narrowPeak
310
fastq
208
bed broadPeak
197
bed bed3+
186
tagAlign
171
bigBed broadPeak
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
2425
Homo sapiens
Biosample type
2433
tissue
1020
primary cell
515
cell line
357
in vitro differentiated cells
9
stem cell
Organ
523
connective tissue
476
pancreas
464
adipose tissue
315
liver
293
kidney
257
heart
240
brain
158
bone element
117
blood vessel
vasculature
105
limb
78
musculature of body
66
artery
56
eye
32
nerve
20
lung
18
ureter
17
spleen
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
2336
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1711
GRCh38
1682
hg19
Lab
2123
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
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
vasculature
target.investigated_as!
control
BIOSAMPLE
ASSAY
2433 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
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
298
58
68
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
2
1
3
1
1
1
1
kidney
49
21
75
13
64
6
1
1
1
bone element
84
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