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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
850
ChIP-seq
241
ATAC-seq
178
DNase-seq
118
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
8
snATAC-seq
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1164
Transcription
850
DNA binding
431
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
579
histone modification
578
histone
305
narrow histone mark
273
broad histone mark
184
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
284
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
40
November, 2019
39
May, 2021
36
March, 2020
26
November, 2018
25
February, 2020
October, 2017
15
May, 2023
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
1890
bam
1716
bigWig
1076
tsv
930
bed narrowPeak
555
bigBed narrowPeak
360
fastq
224
tagAlign
209
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2609
Homo sapiens
Biosample type
2617
tissue
651
cell line
559
primary cell
394
in vitro differentiated cells
8
stem cell
Organ
546
connective tissue
487
adipose tissue
470
pancreas
361
liver
273
heart
252
kidney
249
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
24
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2617
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1803
GRCh38
1740
hg19
Lab
2399
AMP-T2D consortium
142
Katalin Susztak, Upenn
40
Karen Mohlke, UNC
25
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Audit category:
91
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
month_released!
October, 2017
BIOSAMPLE
ASSAY
2617 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
snATAC-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
291
69
56
1
4
3
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
2
1
3
1
1
1
1
kidney
49
27
75
13
17
1
1
6
1
bone element
84
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