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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
422
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
470
DNA accessibility
422
DNA binding
38
DNA methylation
16
3D chromatin structure
Target of assay
407
histone modification
406
histone
broad histone mark
199
narrow histone mark
135
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
229
August, 2021
183
August, 2017
163
June, 2019
154
October, 2019
143
May, 2020
120
July, 2018
95
February, 2023
77
July, 2019
66
May, 2022
59
May, 2019
55
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
40
March, 2020
40
May, 2021
40
November, 2019
26
November, 2018
25
February, 2020
19
April, 2020
15
May, 2023
9
November, 2017
9
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
1685
bam
1499
bigWig
1076
tsv
711
bed narrowPeak
357
bigBed narrowPeak
332
fastq
199
bed bed3+
193
bed broadPeak
176
bigBed broadPeak
tagAlign
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2290
Homo sapiens
Biosample type
2292
tissue
917
primary cell
629
cell line
312
in vitro differentiated cells
9
stem cell
Organ
523
connective tissue
464
adipose tissue
456
pancreas
289
kidney
277
liver
236
heart
158
bone element
122
brain
97
blood vessel
97
vasculature
88
limb
59
artery
59
musculature of body
56
eye
27
nerve
21
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2195
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1521
GRCh38
1475
hg19
Lab
1980
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:
21
missing controlled_by
Audit category:
3
inconsistent control read length
files.file_type!
tagAlign
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2292 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
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
52
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
64
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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