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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
974
total RNA-seq
698
ChIP-seq
255
ATAC-seq
180
single cell RNA-seq
151
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
22
pCHi-C
14
Hi-C
12
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1166
Transcription
698
DNA binding
437
DNA accessibility
37
DNA methylation
14
3D chromatin structure
Target of assay
444
histone modification
443
histone
233
broad histone mark
210
narrow histone mark
162
control
94
transcription factor
28
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
227
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
July, 2019
66
May, 2022
48
December, 2017
47
September, 2023
May, 2021
40
May, 2024
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
4
November, 2020
3
December, 2019
3
March, 2019
2
January, 2018
1
August, 2022
Available data
1643
bam
1532
bigWig
1014
tsv
792
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
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
4
bed bed3
Organism
2459
Homo sapiens
Biosample type
2468
tissue
861
primary cell
607
cell line
262
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
488
adipose tissue
464
pancreas
361
liver
311
heart
299
kidney
brain
158
bone element
133
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
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
thymus
1
urinary bladder
Project
2372
AMP
47
KPMP
30
T1D
19
LungMap
Genome assembly (visualization)
1617
GRCh38
1572
hg19
Lab
2122
AMP-T2D consortium
142
Katalin Susztak, Upenn
50
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
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
month_released!
May, 2021
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
2468 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
255
71
66
6
1
7
4
1
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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