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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1008
total RNA-seq
670
ChIP-seq
233
ATAC-seq
174
DNase-seq
118
single cell RNA-seq
87
RNA microarray
27
WGBS
20
pCHi-C
16
small RNA-seq
15
Hi-C
11
RRBS
8
snATAC-seq
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1142
Transcription
670
DNA binding
419
DNA accessibility
38
DNA methylation
15
3D chromatin structure
Target of assay
423
histone modification
422
histone
244
broad histone mark
178
narrow histone mark
160
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
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
23
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
1719
bam
1570
bigWig
1068
tsv
791
bed narrowPeak
514
bigBed narrowPeak
377
fastq
209
bed broadPeak
201
bed bed3+
189
tagAlign
172
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
2390
Homo sapiens
Biosample type
2398
tissue
621
cell line
525
primary cell
386
in vitro differentiated cells
8
stem cell
Organ
545
connective tissue
487
adipose tissue
472
pancreas
355
liver
265
heart
248
kidney
179
brain
158
bone element
107
blood vessel
107
vasculature
82
musculature of body
53
limb
47
artery
35
eye
25
spleen
18
ureter
16
skeleton
15
epithelium
2
intestine
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
lung
1
nerve
1
ovary
1
pericardium
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2398
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1656
GRCh38
1590
hg19
Lab
2179
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
1
Stephen Parker, UMich
Audit category:
89
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
October, 2019
BIOSAMPLE
ASSAY
2398 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
snATAC-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
adipose tissue
382
2
2
3
1
islet of Langerhans
277
48
44
1
3
1
1
1
4
liver
166
140
20
2
1
3
1
1
1
1
kidney
49
23
75
13
17
1
1
6
1
bone element
84
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