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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
581
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
581
DNA binding
470
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
587
histone modification
586
histone
306
narrow histone mark
broad histone mark
187
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
209
August, 2017
203
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
95
February, 2023
77
July, 2019
66
May, 2022
59
May, 2019
54
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
40
March, 2020
40
May, 2021
40
November, 2017
40
November, 2019
26
November, 2018
25
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
1682
bam
1496
bigWig
1076
tsv
708
bed narrowPeak
354
bigBed narrowPeak
329
fastq
199
bed bed3+
193
bed broadPeak
176
bigBed broadPeak
162
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
2446
Homo sapiens
Biosample type
2451
tissue
961
primary cell
623
cell line
326
in vitro differentiated cells
8
stem cell
Organ
527
connective tissue
468
adipose tissue
462
pancreas
335
liver
289
kidney
236
heart
195
brain
158
bone element
97
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
2354
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1594
GRCh38
1554
hg19
Lab
2139
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:
inconsistent control read length
audit.WARNING.category!
inconsistent control read length
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2451 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
57
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
122
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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