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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
880
total RNA-seq
454
ATAC-seq
367
single cell RNA-seq
280
ChIP-seq
207
DNase-seq
86
RNA microarray
84
snATAC-seq
68
WGBS
41
pCHi-C
26
Hi-C
21
RRBS
15
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1262
Transcription
750
DNA accessibility
280
DNA binding
90
DNA methylation
26
3D chromatin structure
Target of assay
histone modification
832
histone
427
narrow histone mark
405
broad histone mark
198
control
87
transcription factor
33
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
207
February, 2021
200
May, 2022
198
June, 2019
182
February, 2023
168
July, 2018
156
August, 2017
128
May, 2021
96
July, 2019
86
October, 2019
59
September, 2020
49
April, 2018
47
September, 2023
43
December, 2017
41
September, 2018
39
November, 2019
38
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
November, 2020
10
October, 2017
8
December, 2019
7
August, 2020
7
December, 2018
5
March, 2019
5
May, 2024
3
August, 2018
3
June, 2018
3
October, 2022
1
August, 2022
1
January, 2018
1
January, 2019
1
March, 2023
Available data
1406
bam
1210
bigWig
945
tsv
597
fastq
532
bed narrowPeak
302
bigBed narrowPeak
221
bed bed3+
209
bed broadPeak
207
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
53
tagAlign
33
bed bedMethyl
33
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tar
Organism
2540
Homo sapiens
Biosample type
1693
tissue
849
primary cell
624
cell line
281
in vitro differentiated cells
8
stem cell
Organ
720
pancreas
545
connective tissue
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
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2002
AMP
324
HPAP
149
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
1291
hg19
1280
GRCh38
Lab
1775
AMP-T2D consortium
324
Klaus Kaestner, Upenn
177
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:
125
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
6
missing controlled_by
organ_slims!
adipose tissue
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
2542 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
bone tissue
58
+ See 111 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
+ See 92 more…
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