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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
948
total RNA-seq
258
ATAC-seq
227
ChIP-seq
176
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
18
WGBS
16
Hi-C
16
small RNA-seq
6
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1138
Transcription
465
DNA accessibility
227
DNA binding
24
DNA methylation
16
3D chromatin structure
Target of assay
histone
504
histone modification
274
narrow histone mark
230
broad histone mark
158
control
71
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
229
August, 2021
166
May, 2020
163
June, 2019
August, 2017
120
July, 2018
95
February, 2023
77
July, 2019
74
October, 2019
66
May, 2022
47
September, 2023
44
October, 2018
43
December, 2017
40
May, 2021
40
November, 2019
38
March, 2020
26
May, 2019
26
November, 2018
25
February, 2020
20
April, 2019
19
April, 2020
15
May, 2023
12
November, 2017
11
October, 2017
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
5
May, 2024
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
January, 2019
Available data
1311
bam
1132
bigWig
987
tsv
455
bed narrowPeak
245
bigBed narrowPeak
179
bed bed3+
178
bed broadPeak
176
bigBed broadPeak
168
fastq
157
txt
64
xls
44
tagAlign
20
bed bedMethyl
20
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
1987
Homo sapiens
Biosample type
1989
tissue
830
primary cell
624
cell line
in vitro differentiated cells
8
stem cell
Organ
489
connective tissue
431
adipose tissue
325
pancreas
279
kidney
270
liver
218
heart
158
bone element
81
brain
79
blood vessel
79
vasculature
73
limb
54
eye
53
artery
50
musculature of body
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
15
epithelium
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
1894
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
1247
GRCh38
1197
hg19
Lab
1672
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
5
Patrick T. Ellinor, Broad
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:
89
inconsistent ontology term
27
inconsistent control
9
audit script error
month_released!
August, 2017
biosample_type!
in vitro differentiated cells
target.investigated_as!
histone
BIOSAMPLE
ASSAY
1989 results
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total RNA-seq
ATAC-seq
ChIP-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
adipose tissue
382
3
1
islet of Langerhans
209
68
6
7
4
3
1
4
liver
167
20
65
2
1
1
1
1
kidney
49
75
7
13
64
6
1
1
1
bone element
84
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