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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
774
ChIP-seq
222
ATAC-seq
173
DNase-seq
168
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
WGBS
24
pCHi-C
16
small RNA-seq
15
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1214
Transcription
774
DNA binding
427
DNA accessibility
36
DNA methylation
15
3D chromatin structure
Target of assay
539
histone modification
538
histone
291
narrow histone mark
247
broad histone mark
171
control
86
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
282
August, 2017
223
August, 2021
216
October, 2019
193
May, 2020
160
June, 2019
120
July, 2018
82
November, 2017
76
April, 2019
70
July, 2019
66
May, 2022
64
May, 2019
63
October, 2018
60
February, 2023
47
September, 2023
46
December, 2017
40
May, 2021
40
November, 2019
37
March, 2020
26
November, 2018
23
October, 2017
22
February, 2020
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1800
bam
1643
bigWig
1062
tsv
826
bed narrowPeak
482
bigBed narrowPeak
362
fastq
238
tagAlign
208
bed broadPeak
198
bed bed3+
171
bigBed broadPeak
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2575
Homo sapiens
Biosample type
2584
tissue
1043
primary cell
531
cell line
383
in vitro differentiated cells
10
stem cell
Organ
542
connective tissue
497
pancreas
483
adipose tissue
359
liver
298
kidney
268
heart
265
brain
158
bone element
130
blood vessel
vasculature
122
limb
82
musculature of body
72
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
2487
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1695
GRCh38
1666
hg19
Lab
2272
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:
25
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
vasculature
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2584 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
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
69
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
144
20
2
1
3
1
1
1
1
kidney
49
26
75
13
64
6
1
1
1
bone element
84
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