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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
879
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
small RNA-seq
11
RRBS
5
Hi-C
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
879
DNA binding
470
DNA accessibility
38
DNA methylation
5
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
282
August, 2017
241
October, 2019
228
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
111
May, 2019
95
February, 2023
82
November, 2017
77
July, 2019
76
April, 2019
66
May, 2022
63
October, 2018
47
September, 2023
46
December, 2017
40
May, 2021
39
November, 2019
35
May, 2024
33
March, 2020
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1884
bam
1745
bigWig
1076
tsv
958
bed narrowPeak
541
bigBed narrowPeak
362
fastq
238
tagAlign
213
bed broadPeak
203
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2729
Homo sapiens
Biosample type
2738
tissue
751
primary cell
595
cell line
379
in vitro differentiated cells
10
stem cell
Organ
542
connective tissue
494
pancreas
483
adipose tissue
358
liver
300
heart
297
kidney
265
brain
158
bone element
129
blood vessel
129
vasculature
122
limb
80
musculature of body
72
artery
56
eye
43
nerve
25
spleen
20
lung
18
ureter
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
2641
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1832
GRCh38
1722
hg19
Lab
2393
AMP-T2D consortium
141
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
35
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
25
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
award.project!
HPAP
files.file_type!
hic
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2738 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
small RNA-seq
RRBS
Hi-C
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
69
68
1
7
4
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
144
20
2
1
3
1
1
1
kidney
49
26
75
13
64
6
1
1
bone element
84
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