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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1156
total RNA-seq
1028
ChIP-seq
268
ATAC-seq
179
DNase-seq
176
single cell RNA-seq
87
RNA microarray
29
pCHi-C
27
WGBS
20
Hi-C
18
snATAC-seq
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
GRO-seq
4
MeRIP-seq
3
snDrop-seq
2
Capture-C
Assay category
1348
Transcription
1028
DNA binding
469
DNA accessibility
38
DNA methylation
20
3D chromatin structure
Target of assay
685
histone modification
684
histone
354
narrow histone mark
329
broad histone mark
219
control
126
transcription factor
29
RNA binding protein
5
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
571
February, 2021
352
August, 2017
271
August, 2021
250
October, 2019
193
May, 2020
163
June, 2019
123
May, 2021
120
July, 2018
115
May, 2019
93
February, 2023
91
December, 2017
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
48
March, 2020
47
September, 2023
45
November, 2019
42
May, 2022
39
February, 2018
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
January, 2018
6
September, 2017
5
December, 2019
5
March, 2019
4
November, 2020
1
August, 2018
1
August, 2022
Available data
2174
bam
1986
bigWig
1207
tsv
1058
bed narrowPeak
578
bigBed narrowPeak
494
fastq
278
tagAlign
230
bed bed3+
214
bed broadPeak
177
bigBed broadPeak
154
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
17
bedpe bed3+
15
hic
10
bed bed3
7
bed bedgraph
6
csv
2
ibed
1
bedpe
1
tagAlign bed3+
Organism
3023
Homo sapiens
Biosample type
2685
tissue
849
primary cell
657
cell line
347
in vitro differentiated cells
10
stem cell
Organ
644
connective tissue
489
adipose tissue
457
pancreas
376
liver
299
kidney
274
heart
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
39
epithelium
29
embryo
25
spleen
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2962
AMP
47
KPMP
19
LungMap
4
T1D
Genome assembly (visualization)
2084
GRCh38
2029
hg19
4
hg18
Lab
2765
AMP-T2D consortium
142
Katalin Susztak, Upenn
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
7
Struan F.A. Grant, CHOP
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:
206
inconsistent ontology term
27
inconsistent control
11
audit script error
Audit category:
32
missing controlled_by
Audit category:
23
inconsistent control read length
1
inconsistent assembly
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
3032 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
Hi-C
snATAC-seq
small RNA-seq
RRBS
FAIRE-seq
GRO-seq
MeRIP-seq
snDrop-seq
Capture-C
tissue
islet of Langerhans
287
71
39
1
4
3
1
1
1
4
adipose tissue
382
2
3
1
3
liver
167
145
20
2
1
1
3
1
1
1
kidney
49
27
75
13
64
1
6
1
1
bone element
84
+ See 176 more…
in vitro differentiated cells
adipocyte
5
67
8
1
1
cardiomyocytes
59
3
neural progenitor cell
7
21
10
pancreatic endoderm
4
18
1
cardiac precursors (cardiac muscle cell)
19
1
1
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