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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
890
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
169
DNase-seq
86
RNA microarray
27
snATAC-seq
25
pCHi-C
21
WGBS
16
Hi-C
16
small RNA-seq
11
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1227
Transcription
890
DNA binding
459
DNA accessibility
32
DNA methylation
16
3D chromatin structure
Target of assay
622
histone modification
621
histone
322
narrow histone mark
299
broad histone mark
183
control
87
transcription factor
28
RNA binding protein
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
277
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
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
November, 2018
25
February, 2020
23
October, 2017
18
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
2
January, 2018
1
August, 2022
Available data
1874
bam
1743
bigWig
1076
tsv
961
bed narrowPeak
538
bigBed narrowPeak
344
fastq
231
tagAlign
198
bed broadPeak
196
bed bed3+
167
bigBed broadPeak
157
txt
64
xls
19
bed bedMethyl
19
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2742
Homo sapiens
Biosample type
2742
tissue
1087
primary cell
597
cell line
in vitro differentiated cells
8
stem cell
Organ
545
connective tissue
491
pancreas
486
adipose tissue
354
liver
313
heart
299
kidney
263
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
19
lung
18
ureter
16
skeleton
16
spleen
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
2646
AMP
47
KPMP
31
T1D
18
LungMap
Genome assembly (visualization)
1831
GRCh38
1732
hg19
Lab
2391
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
18
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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
biosample_type!
in vitro differentiated cells
month_released!
November, 2018
BIOSAMPLE
ASSAY
2742 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
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
292
71
68
6
1
7
4
3
1
4
1
adipose tissue
382
2
3
1
3
liver
167
141
20
1
1
3
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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