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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1006
total RNA-seq
867
ChIP-seq
254
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
RNA microarray
28
snATAC-seq
25
pCHi-C
15
WGBS
12
Hi-C
5
RRBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
Assay category
1180
Transcription
867
DNA binding
462
DNA accessibility
20
DNA methylation
12
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
187
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
461
February, 2021
284
August, 2017
242
October, 2019
228
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
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
2
January, 2018
1
August, 2022
1
December, 2019
Available data
1843
bam
1669
bigWig
1027
tsv
937
bed narrowPeak
559
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
73
txt
64
xls
11
bed bedMethyl
11
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2565
Homo sapiens
Biosample type
2573
tissue
1057
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
536
connective tissue
499
pancreas
477
adipose tissue
353
liver
293
kidney
254
brain
253
heart
126
blood vessel
126
vasculature
117
limb
75
musculature of body
74
bone element
72
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
14
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2476
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1758
GRCh38
1695
hg19
Lab
2261
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:
27
inconsistent control
7
audit script error
7
inconsistent ontology term
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
July, 2019
assay_title!
RNA microarray
BIOSAMPLE
ASSAY
2573 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
snATAC-seq
pCHi-C
WGBS
Hi-C
RRBS
MeRIP-seq
snDrop-seq
FAIRE-seq
tissue
islet of Langerhans
298
71
68
1
7
4
3
4
1
adipose tissue
382
2
3
1
3
liver
165
145
20
2
1
1
3
1
1
kidney
49
27
75
13
64
6
1
heart left ventricle
1
35
3
18
1
1
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