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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
892
ChIP-seq
252
ATAC-seq
178
DNase-seq
171
single cell RNA-seq
87
RNA microarray
27
WGBS
25
pCHi-C
18
snATAC-seq
16
small RNA-seq
11
RRBS
6
Hi-C
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
892
DNA binding
452
DNA accessibility
187
Transcription
38
DNA methylation
6
3D chromatin structure
Target of assay
616
histone modification
615
histone
322
narrow histone mark
293
broad histone mark
184
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
219
October, 2019
195
August, 2017
178
August, 2021
163
June, 2019
115
May, 2019
101
February, 2021
82
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
50
May, 2020
48
December, 2017
47
September, 2023
46
July, 2019
40
May, 2022
40
May, 2024
26
November, 2018
24
March, 2020
October, 2017
20
November, 2019
14
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2021
Available data
991
bam
972
bed narrowPeak
863
bigWig
555
bigBed narrowPeak
263
fastq
224
tagAlign
209
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
151
tsv
98
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
1686
Homo sapiens
Biosample type
1694
tissue
837
primary cell
547
cell line
251
in vitro differentiated cells
10
stem cell
Organ
295
heart
249
kidney
232
brain
214
pancreas
190
liver
125
blood vessel
125
vasculature
115
limb
96
bone element
91
connective tissue
90
adipose tissue
75
musculature of body
71
artery
38
nerve
37
eye
24
spleen
18
ureter
13
epithelium
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
1623
AMP
47
KPMP
24
T1D
LungMap
Genome assembly (visualization)
949
GRCh38
837
hg19
Lab
1445
AMP-T2D consortium
93
Katalin Susztak, Upenn
47
KPMP
40
Kyle Gaulton, UCSD
40
Patrick T. Ellinor, Broad
20
Karen Mohlke, UNC
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
Audit category:
90
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
assay_title!
total RNA-seq
award.project!
LungMap
files.file_type!
bedpe bed3+
month_released!
October, 2017
BIOSAMPLE
ASSAY
1694 results
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ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
small RNA-seq
RRBS
Hi-C
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
kidney
27
75
13
64
6
1
1
1
liver
145
20
2
1
3
1
1
1
islet of Langerhans
71
67
1
6
4
7
1
1
1
4
bone element
84
heart left ventricle
35
2
3
18
4
1
1
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