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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
979
total RNA-seq
905
ChIP-seq
183
ATAC-seq
178
DNase-seq
163
single cell RNA-seq
87
RNA microarray
27
WGBS
22
snATAC-seq
16
small RNA-seq
11
RRBS
8
Hi-C
5
pCHi-C
4
FAIRE-seq
3
snDrop-seq
Assay category
1158
Transcription
905
DNA binding
387
DNA accessibility
38
DNA methylation
8
3D chromatin structure
Target of assay
626
histone modification
625
histone
322
narrow histone mark
303
broad histone mark
185
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
284
August, 2017
242
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
August, 2021
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1898
bam
1761
bigWig
1048
tsv
918
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
100
txt
25
bed bedMethyl
25
bigBed bedMethyl
6
csv
5
bed bed3
3
bedpe bed3+
3
hic
1
bedpe
1
tagAlign bed3+
Organism
2582
Homo sapiens
Biosample type
2591
tissue
1081
primary cell
645
cell line
386
in vitro differentiated cells
6
stem cell
Organ
546
connective tissue
492
pancreas
487
adipose tissue
358
liver
306
heart
263
brain
158
bone element
157
kidney
130
blood vessel
130
vasculature
122
limb
77
musculature of body
73
artery
56
eye
43
nerve
24
spleen
19
lung
18
ureter
16
skeleton
15
epithelium
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
spinal cord
1
thymus
Project
2498
AMP
47
KPMP
27
T1D
19
LungMap
Genome assembly (visualization)
1775
GRCh38
1736
hg19
Lab
2385
AMP-T2D consortium
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
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!
November, 2020
March, 2020
lab.title!
Katalin Susztak, Upenn
BIOSAMPLE
ASSAY
2591 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
small RNA-seq
RRBS
Hi-C
pCHi-C
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
296
69
66
1
7
1
3
4
1
adipose tissue
382
2
3
3
liver
166
145
20
2
1
3
1
1
kidney
27
13
53
1
1
bone element
84
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