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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
441
ChIP-seq
252
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1226
Transcription
462
DNA accessibility
441
DNA binding
38
DNA methylation
16
3D chromatin structure
Target of assay
442
histone modification
441
histone
broad histone mark
214
narrow histone mark
134
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
229
August, 2021
183
August, 2017
163
June, 2019
154
October, 2019
143
May, 2020
120
July, 2018
95
February, 2023
77
July, 2019
66
May, 2022
59
May, 2019
55
October, 2018
47
September, 2023
45
December, 2017
43
April, 2019
40
March, 2020
40
May, 2021
40
November, 2019
26
November, 2018
24
February, 2020
20
May, 2024
19
April, 2020
15
May, 2023
9
November, 2017
October, 2017
8
January, 2021
7
December, 2018
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
3
January, 2019
2
January, 2018
1
August, 2022
Available data
1675
bam
1510
bigWig
1075
tsv
724
bed narrowPeak
356
bigBed narrowPeak
321
fastq
199
bed bed3+
191
bed broadPeak
176
bigBed broadPeak
tagAlign
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2300
Homo sapiens
Biosample type
2302
tissue
917
primary cell
629
cell line
312
in vitro differentiated cells
9
stem cell
Organ
522
connective tissue
463
adipose tissue
451
pancreas
289
kidney
277
liver
256
heart
158
bone element
120
brain
97
blood vessel
97
vasculature
88
limb
59
artery
59
musculature of body
56
eye
27
nerve
20
lung
20
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
spinal cord
1
stomach
1
urinary bladder
Project
2205
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1533
GRCh38
1468
hg19
Lab
1971
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
20
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
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
21
missing controlled_by
Audit category:
3
inconsistent control read length
files.file_type!
tagAlign
month_released!
October, 2017
organ_slims!
spinal cord
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
2302 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
52
67
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
64
20
1
2
3
1
1
1
1
kidney
49
17
75
64
13
6
1
1
1
bone element
84
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