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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1022
total RNA-seq
766
ChIP-seq
219
ATAC-seq
151
DNase-seq
87
RNA microarray
81
single cell RNA-seq
28
snATAC-seq
22
pCHi-C
19
WGBS
15
small RNA-seq
13
Hi-C
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1118
Transcription
766
DNA binding
402
DNA accessibility
29
DNA methylation
13
3D chromatin structure
Target of assay
533
histone modification
532
histone
286
narrow histone mark
246
broad histone mark
171
control
82
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
234
October, 2019
193
May, 2020
137
August, 2021
136
June, 2019
120
July, 2018
92
May, 2019
82
November, 2017
66
May, 2022
63
October, 2018
59
February, 2023
57
July, 2019
47
September, 2023
46
December, 2017
40
November, 2019
38
May, 2021
33
March, 2020
26
November, 2018
23
October, 2017
22
April, 2019
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
January, 2018
1
August, 2022
Available data
1757
bam
1596
bigWig
965
tsv
795
bed narrowPeak
458
bigBed narrowPeak
362
fastq
238
tagAlign
186
bed broadPeak
176
bed bed3+
157
txt
149
bigBed broadPeak
64
xls
18
bed bedMethyl
18
bigBed bedMethyl
8
hic
7
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2435
Homo sapiens
Biosample type
2444
tissue
1066
primary cell
530
cell line
378
in vitro differentiated cells
9
stem cell
Organ
541
connective tissue
497
pancreas
482
adipose tissue
359
liver
heart
298
kidney
265
brain
158
bone element
130
blood vessel
130
vasculature
122
limb
81
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
2347
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1651
GRCh38
1623
hg19
Lab
2132
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
target.investigated_as!
RNA binding protein
month_released!
January, 2018
organ_slims!
heart
BIOSAMPLE
ASSAY
2444 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
single cell RNA-seq
snATAC-seq
pCHi-C
WGBS
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
2
1
3
liver
167
144
20
2
1
1
3
1
1
1
kidney
49
26
75
13
64
6
1
1
1
bone element
84
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