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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
877
total RNA-seq
648
ChIP-seq
256
ATAC-seq
174
single cell RNA-seq
87
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
2
DNase-seq
Assay category
1063
Transcription
648
DNA binding
289
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
417
histone modification
416
histone
233
broad histone mark
183
narrow histone mark
139
control
94
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
284
August, 2017
229
August, 2021
May, 2020
152
October, 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
May, 2024
40
November, 2019
38
March, 2020
19
April, 2020
17
November, 2018
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
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1488
bam
1400
bigWig
910
tsv
765
bed narrowPeak
445
bigBed narrowPeak
365
fastq
178
bed bed3+
177
bed broadPeak
157
txt
bigBed broadPeak
70
tagAlign
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2161
Homo sapiens
Biosample type
2170
tissue
882
primary cell
602
cell line
393
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
499
pancreas
486
adipose tissue
286
heart
brain
231
kidney
165
liver
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
50
musculature of body
41
nerve
24
spleen
20
lung
16
skeleton
15
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
2073
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1345
GRCh38
1299
hg19
Lab
1818
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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:
87
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
22
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bigBed broadPeak
organ_slims!
brain
month_released!
May, 2020
BIOSAMPLE
ASSAY
2170 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
71
67
7
4
3
1
4
1
1
adipose tissue
382
2
3
3
1
kidney
49
27
75
64
6
1
1
1
liver
24
95
20
1
3
1
1
1
1
bone element
84
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