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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1020
total RNA-seq
538
ChIP-seq
256
ATAC-seq
174
single cell RNA-seq
151
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
23
pCHi-C
16
Hi-C
12
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1206
Transcription
538
DNA binding
438
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
322
histone modification
321
histone
182
broad histone mark
139
narrow histone mark
129
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
225
August, 2017
145
October, 2019
143
May, 2020
138
June, 2019
120
July, 2018
94
February, 2023
87
May, 2019
80
April, 2019
74
October, 2018
66
July, 2019
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
November, 2019
38
March, 2020
24
November, 2018
19
April, 2020
15
May, 2023
13
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
1681
bam
1530
bigWig
1053
tsv
752
bed narrowPeak
445
bigBed narrowPeak
365
fastq
178
bed bed3+
177
bed broadPeak
157
txt
149
bigBed broadPeak
tagAlign
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2350
Homo sapiens
Biosample type
2352
tissue
643
primary cell
642
cell line
354
in vitro differentiated cells
10
stem cell
Organ
539
connective tissue
489
pancreas
480
adipose tissue
299
kidney
291
liver
273
heart
158
bone element
brain
133
blood vessel
133
vasculature
122
limb
73
artery
67
musculature of body
56
eye
43
nerve
25
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
2255
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1582
GRCh38
1550
hg19
Lab
2040
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
award.project!
HPAP
files.file_type!
tagAlign
organ_slims!
brain
BIOSAMPLE
ASSAY
2352 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
62
67
1
7
4
3
1
4
1
adipose tissue
382
2
3
3
1
liver
167
75
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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