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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1011
total RNA-seq
910
ChIP-seq
222
ATAC-seq
178
DNase-seq
173
single cell RNA-seq
87
RNA microarray
29
pCHi-C
27
WGBS
27
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
GRO-seq
Assay category
1202
Transcription
910
DNA binding
431
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
630
histone modification
629
histone
325
narrow histone mark
304
broad histone mark
188
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
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
May, 2022
51
December, 2017
47
September, 2023
44
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
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
3
January, 2018
2
March, 2023
1
August, 2022
Available data
1886
bam
1755
bigWig
1080
tsv
948
bed narrowPeak
561
bigBed narrowPeak
357
fastq
238
tagAlign
213
bed broadPeak
207
bed bed3+
176
bigBed broadPeak
150
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
2710
Homo sapiens
Biosample type
2711
tissue
954
primary cell
662
cell line
387
in vitro differentiated cells
10
stem cell
Organ
548
connective tissue
488
adipose tissue
481
pancreas
321
liver
313
heart
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
80
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
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
2622
AMP
47
KPMP
31
T1D
19
LungMap
2
community
Genome assembly (visualization)
1862
GRCh38
1719
hg19
1
hg18
Lab
2431
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Patrick T. Ellinor, Broad
28
Kyle Gaulton, UCSD
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
92
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
26
missing controlled_by
Audit category:
8
inconsistent control read length
1
inconsistent assembly
month_released!
May, 2022
lab.title!
Struan F.A. Grant, CHOP
BIOSAMPLE
ASSAY
2721 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
CRISPR RNA-seq
CRISPRi RNA-seq
GRO-seq
tissue
islet of Langerhans
292
71
50
1
4
7
3
1
1
4
adipose tissue
382
2
3
1
3
liver
147
145
2
1
1
3
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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stem cell
hESC
3
1
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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