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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
348
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
178
DNase-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
1227
Transcription
470
DNA accessibility
348
DNA binding
38
DNA methylation
16
3D chromatin structure
Target of assay
442
histone modification
441
histone
broad histone mark
214
narrow histone mark
135
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
163
June, 2019
160
August, 2017
154
October, 2019
143
May, 2020
120
July, 2018
95
February, 2023
77
July, 2019
66
May, 2022
55
May, 2019
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
40
October, 2018
37
April, 2019
25
February, 2020
19
April, 2020
19
November, 2018
15
May, 2023
15
May, 2024
14
December, 2017
9
November, 2017
9
October, 2017
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
4
December, 2018
4
November, 2020
3
December, 2019
3
January, 2019
2
January, 2018
1
August, 2022
Available data
1596
bam
1426
bigWig
1076
tsv
656
bed narrowPeak
292
bigBed narrowPeak
253
fastq
193
bed broadPeak
186
bed bed3+
176
bigBed broadPeak
tagAlign
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2216
Homo sapiens
Biosample type
2218
tissue
583
primary cell
273
cell line
267
in vitro differentiated cells
9
stem cell
Organ
506
connective tissue
447
adipose tissue
439
pancreas
288
kidney
244
heart
238
liver
158
bone element
122
brain
94
blood vessel
94
vasculature
88
limb
59
musculature of body
58
artery
56
eye
27
nerve
20
lung
18
ureter
16
skeleton
15
epithelium
15
spleen
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2121
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1448
GRCh38
1387
hg19
Lab
1891
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
15
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:
91
inconsistent ontology term
9
audit script error
Audit category:
3
missing controlled_by
Audit category:
3
inconsistent control read length
files.file_type!
tagAlign
lab.title!
Klaus Kaestner, Upenn
target.investigated_as!
broad histone mark
transcription factor
BIOSAMPLE
ASSAY
2218 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-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
45
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
kidney
49
16
75
64
13
6
1
1
1
liver
167
27
20
1
2
3
1
1
1
1
bone element
84
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