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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
992
total RNA-seq
878
ChIP-seq
241
ATAC-seq
179
single cell RNA-seq
146
DNase-seq
87
RNA microarray
27
snATAC-seq
24
pCHi-C
15
WGBS
10
Hi-C
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
1
RRBS
Assay category
1171
Transcription
878
DNA binding
416
DNA accessibility
16
DNA methylation
10
3D chromatin structure
Target of assay
603
histone modification
602
histone
315
narrow histone mark
287
broad histone mark
183
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
258
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
131
June, 2019
120
July, 2018
108
May, 2019
87
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
July, 2019
64
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
35
March, 2020
26
November, 2018
23
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
1
August, 2022
1
January, 2018
Available data
1794
bam
1655
bigWig
1024
tsv
918
bed narrowPeak
521
bigBed narrowPeak
375
fastq
223
tagAlign
172
bed bed3+
168
bed broadPeak
152
txt
144
bigBed broadPeak
64
xls
9
bed bedMethyl
9
bigBed bedMethyl
9
hic
8
bedpe bed3+
6
csv
1
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2600
Homo sapiens
Biosample type
2609
tissue
1046
primary cell
662
cell line
355
in vitro differentiated cells
10
stem cell
Organ
537
connective tissue
499
pancreas
478
adipose tissue
353
liver
295
kidney
293
heart
254
brain
158
bone element
126
blood vessel
126
vasculature
117
limb
musculature of body
72
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2512
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1751
GRCh38
1624
hg19
Lab
2257
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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:
90
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
February, 2018
July, 2019
organ_slims!
musculature of body
skeleton
BIOSAMPLE
ASSAY
2609 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
MeRIP-seq
snDrop-seq
FAIRE-seq
RRBS
tissue
islet of Langerhans
292
71
68
6
1
7
4
3
4
1
adipose tissue
382
2
3
1
3
liver
165
145
20
1
2
1
3
1
1
kidney
49
27
75
64
13
6
1
bone element
84
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