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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1026
total RNA-seq
258
ATAC-seq
180
single cell RNA-seq
176
DNase-seq
175
ChIP-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1222
Transcription
466
DNA accessibility
175
DNA binding
38
DNA methylation
16
3D chromatin structure
Target of assay
603
histone modification
histone
315
narrow histone mark
287
broad histone mark
176
control
transcription factor
28
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
138
August, 2017
120
July, 2018
95
February, 2023
77
July, 2019
66
May, 2022
55
October, 2019
47
September, 2023
40
May, 2021
40
November, 2019
38
March, 2020
29
October, 2018
24
February, 2020
22
May, 2019
19
April, 2020
19
November, 2018
15
May, 2023
14
April, 2019
12
December, 2017
12
November, 2017
11
October, 2017
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
4
December, 2018
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
January, 2019
Available data
1335
bam
1151
bigWig
1071
tsv
387
bed narrowPeak
225
fastq
182
bigBed narrowPeak
178
bed bed3+
176
bed broadPeak
174
bigBed broadPeak
157
txt
64
xls
52
tagAlign
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
Organism
2033
Homo sapiens
Biosample type
2036
tissue
841
primary cell
263
cell line
233
in vitro differentiated cells
8
stem cell
Organ
497
connective tissue
439
adipose tissue
415
pancreas
278
kidney
253
liver
206
heart
158
bone element
81
brain
76
blood vessel
76
vasculature
73
limb
57
musculature of body
54
eye
52
artery
20
lung
nerve
18
ureter
16
skeleton
15
epithelium
13
spleen
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
ovary
1
pericardium
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
1941
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
1266
GRCh38
1223
hg19
Lab
1724
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:
89
inconsistent ontology term
9
audit script error
organ_slims!
nerve
pituitary gland
target.investigated_as!
histone
transcription factor
BIOSAMPLE
ASSAY
2036 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
ChIP-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
67
6
1
13
7
4
3
1
1
4
adipose tissue
382
3
1
3
1
liver
167
20
1
2
44
3
1
1
1
1
kidney
49
75
64
13
6
6
1
1
1
bone element
84
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