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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
658
ChIP-seq
256
ATAC-seq
174
single cell RNA-seq
151
DNase-seq
87
RNA microarray
28
snATAC-seq
23
pCHi-C
16
Hi-C
12
small RNA-seq
11
WGBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
2
RRBS
Assay category
1206
Transcription
658
DNA binding
438
DNA accessibility
16
3D chromatin structure
13
DNA methylation
Target of assay
409
histone modification
408
histone
213
broad histone mark
195
narrow histone mark
162
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
279
August, 2017
229
August, 2021
193
May, 2020
156
October, 2019
138
June, 2019
120
July, 2018
94
February, 2023
87
May, 2019
80
April, 2019
74
October, 2018
66
May, 2022
53
July, 2019
48
December, 2017
47
September, 2023
40
May, 2021
40
November, 2019
38
March, 2020
19
April, 2020
18
November, 2018
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
120
tagAlign
64
xls
24
bed bedMethyl
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2439
Homo sapiens
Biosample type
2448
tissue
1058
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
499
pancreas
486
adipose tissue
360
liver
298
kidney
266
heart
brain
158
bone element
132
blood vessel
132
vasculature
121
limb
79
musculature of body
73
artery
56
eye
43
nerve
23
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2351
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1604
hg19
1600
GRCh38
Lab
2136
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
files.file_type!
bigBed bedMethyl
BIOSAMPLE
ASSAY
2448 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
WGBS
MeRIP-seq
FAIRE-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
298
71
67
1
7
4
3
4
1
adipose tissue
382
2
3
1
1
liver
167
145
20
1
2
1
1
1
3
kidney
49
27
75
64
13
6
1
1
bone element
84
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