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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1020
total RNA-seq
658
ChIP-seq
256
ATAC-seq
174
single cell RNA-seq
151
DNase-seq
RNA microarray
28
snATAC-seq
27
WGBS
23
pCHi-C
16
Hi-C
12
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1206
Transcription
658
DNA binding
438
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
409
histone modification
408
histone
213
broad histone mark
195
narrow histone mark
162
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
461
February, 2021
284
August, 2017
228
August, 2021
193
May, 2020
156
October, 2019
138
June, 2019
120
July, 2018
94
February, 2023
87
May, 2019
80
April, 2019
74
October, 2018
66
July, 2019
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
November, 2019
38
March, 2020
24
November, 2018
19
April, 2020
15
May, 2023
13
February, 2020
8
January, 2021
7
December, 2018
7
January, 2019
7
October, 2017
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
2
January, 2018
1
August, 2022
1
December, 2019
Available data
1681
bam
1530
bigWig
1051
tsv
752
bed narrowPeak
445
bigBed narrowPeak
365
fastq
178
bed bed3+
177
bed broadPeak
149
bigBed broadPeak
120
tagAlign
73
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2377
Homo sapiens
Biosample type
2385
tissue
1067
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
505
pancreas
487
adipose tissue
361
liver
297
kidney
273
heart
brain
133
blood vessel
133
vasculature
122
limb
82
musculature of body
74
bone element
73
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
14
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
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
urinary bladder
Project
2288
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1616
GRCh38
1612
hg19
Lab
2073
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:
27
inconsistent control
7
audit script error
4
inconsistent ontology term
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
brain
assay_title!
RNA microarray
BIOSAMPLE
ASSAY
2385 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
298
71
67
1
7
4
3
1
4
1
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
heart left ventricle
3
35
2
18
3
4
1
1
1
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