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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1013
total RNA-seq
585
ChIP-seq
218
ATAC-seq
168
single cell RNA-seq
146
DNase-seq
87
RNA microarray
28
snATAC-seq
25
WGBS
22
pCHi-C
15
Hi-C
12
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1193
Transcription
585
DNA binding
395
DNA accessibility
35
DNA methylation
15
3D chromatin structure
Target of assay
355
histone modification
354
histone
177
broad histone mark
177
narrow histone mark
146
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
284
August, 2017
223
August, 2021
193
May, 2020
135
June, 2019
130
October, 2019
120
July, 2018
80
April, 2019
74
October, 2018
66
May, 2022
59
February, 2023
59
July, 2019
48
December, 2017
47
September, 2023
40
May, 2021
40
November, 2019
37
May, 2019
35
March, 2020
24
November, 2018
19
April, 2020
15
May, 2023
10
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
1594
bam
1460
bigWig
1039
tsv
652
bed narrowPeak
383
bigBed narrowPeak
365
fastq
173
bed bed3+
172
bed broadPeak
157
txt
144
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
2330
Homo sapiens
Biosample type
2339
tissue
1041
primary cell
596
cell line
394
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
505
pancreas
488
adipose tissue
361
liver
299
kidney
273
heart
brain
158
bone element
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
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
2242
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1542
hg19
1511
GRCh38
Lab
2027
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:
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
BIOSAMPLE
ASSAY
2339 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
298
71
67
1
7
4
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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