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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
813
total RNA-seq
452
ATAC-seq
363
single cell RNA-seq
276
ChIP-seq
201
DNase-seq
86
RNA microarray
84
snATAC-seq
68
WGBS
38
pCHi-C
25
Hi-C
20
RRBS
15
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1191
Transcription
742
DNA accessibility
276
DNA binding
89
DNA methylation
25
3D chromatin structure
Target of assay
histone modification
819
histone
418
narrow histone mark
401
broad histone mark
195
control
86
transcription factor
32
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
313
May, 2020
229
August, 2021
200
May, 2022
189
June, 2019
182
February, 2023
166
July, 2018
156
August, 2017
146
February, 2021
127
May, 2021
90
July, 2019
86
October, 2019
59
September, 2020
47
April, 2018
47
September, 2023
43
December, 2017
41
September, 2018
39
November, 2019
37
March, 2020
28
May, 2019
26
November, 2018
23
February, 2020
23
October, 2018
20
April, 2019
19
April, 2020
18
November, 2017
16
January, 2021
14
May, 2023
11
September, 2017
10
October, 2017
8
December, 2019
7
August, 2020
7
December, 2018
5
March, 2019
5
May, 2024
4
November, 2020
3
August, 2018
3
June, 2018
3
October, 2022
1
August, 2022
1
January, 2018
1
January, 2019
1
March, 2023
Available data
1322
bam
1130
bigWig
873
tsv
594
fastq
523
bed narrowPeak
295
bigBed narrowPeak
213
bed bed3+
203
bed broadPeak
201
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
53
tagAlign
32
bed bedMethyl
32
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
5
bed bed3
3
cool
3
hdf5
1
bedpe
1
tar
Organism
2452
Homo sapiens
Biosample type
1634
tissue
820
primary cell
624
cell line
222
in vitro differentiated cells
7
stem cell
Organ
720
pancreas
connective tissue
458
adipose tissue
355
epithelium
305
kidney
302
liver
229
heart
159
bone element
99
brain
99
vasculature
94
blood vessel
73
limb
63
musculature of body
58
eye
55
artery
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
8
blood
8
bodily fluid
7
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
1915
AMP
324
HPAP
148
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
1209
hg19
1200
GRCh38
Lab
1688
AMP-T2D consortium
324
Klaus Kaestner, Upenn
176
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
120
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
6
missing controlled_by
organ_slims!
connective tissue
ovary
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
2454 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
292
68
6
20
1
7
4
3
1
1
4
liver
167
20
1
80
2
3
1
1
1
1
kidney
49
75
64
7
13
6
1
1
1
bone element
84
heart left ventricle
3
2
18
11
3
4
1
1
1
+ See 109 more…
primary cell
pancreatic alpha cell
52
35
12
6
31
1
Langerhans cell
85
48
pancreatic beta cell
21
23
12
6
16
1
monocyte
54
15
1
1
exocrine cell
39
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