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Lars Juhl Jensen
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4th Novo Nordisk TRAP Symposium, Novo Nordisk, Bagsværd, Denmark, October 27, 2009.
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Protein networks: A basis for large-scale data mining
1.
Protein networks A
basis for large-scale data mining Lars Juhl Jensen
2.
3.
4.
5.
6.
Phase 1 association
networks
7.
who?
8.
9.
STRING
10.
Jensen, Kuhn et
al., Nucleic Acids Research , 2009
11.
genomic context
12.
Korbel et al.,
Nature Biotechnology , 2004
13.
gene coexpression
14.
15.
protein interactions
16.
Jensen & Bork,
Science , 2008
17.
curated knowledge
18.
Letunic & Bork,
Trends in Biochemical Sciences , 2008
19.
literature mining
20.
21.
confidence scores
22.
von Mering et
al., Nucleic Acids Research , 2005
23.
transfer by orthology
24.
probabilistic integration
25.
Frishman et al.,
Modern Genome Annotation , 2009
26.
Phase 2 signaling
networks
27.
what?
28.
phosphoproteomics
29.
30.
signaling events
31.
sequence motifs
32.
Miller, Jensen et
al., Science Signaling , 2008
33.
NetPhorest
34.
Miller, Jensen et
al., Science Signaling , 2008
35.
36.
NetworKIN
37.
Linding, Jensen, Ostheimer
et al., Cell , 2007
38.
benchmarking
39.
Linding, Jensen, Ostheimer
et al., Cell , 2007
40.
context is crucial
41.
use cases
42.
DNA damage response
43.
Linding, Jensen, Ostheimer
et al., Cell , 2007
44.
cell-cycle kinases
45.
46.
Phase 3 dynamic
networks
47.
when?
48.
cell-cycle regulation
49.
50.
microarray time courses
51.
Gauthier et al.,
Nucleic Acids Research , 2007
52.
protein interactions
53.
temporal network
54.
de Lichtenberg, Jensen
et al., Science , 2005
55.
de Lichtenberg, Jensen
et al., Science , 2005
56.
just-in-time assembly
57.
de Lichtenberg, Jensen
et al., Cell Cycle , 2007
58.
evolutionary flexibility
59.
individual genes
60.
Jensen, Jensen, de
Lichtenberg et al., Nature , 2006
61.
protein complexes
62.
Jensen, Jensen, de
Lichtenberg et al., Nature , 2006
63.
phosphorylation
64.
co-evolution
65.
Jensen, Jensen, de
Lichtenberg et al., Nature , 2006
66.
summary
67.
networks
68.
data integration
69.
specific predictions
70.
systems properties
71.
72.
73.
larsjuhljensen
Notas del editor
Integration Automation Collaboration
Atlas of human kinases Atlases for phospho-binding proteins Atlases for model organisms Ubiquitination would be welcome
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