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Large-scale data and text mining

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Lars Juhl Jensen
Lars Juhl Jensen

Novo Nordisk Foundation Center for Protein Research, Copenhagen, Denmark, September 18, 2009.

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Large-scale data and text mining Lars Juhl Jensen
 
 
function prediction
Jensen, Gupta et al., Journal of Molecular Biology , 2002
 
 
cell-cycle regulation
de Lichtenberg, Jensen et al., Science , 2005
Jensen, Jensen, de Lichtenberg et al., Nature , 2006
phosphorylation
 
signaling networks
upstream events
downstream events
NetworKIN
 
sequence motifs
NetPhorest
automated pipeline
Miller, Jensen et al., Science Signaling , 2008
data organization
Miller, Jensen et al., Science Signaling , 2008
compilation of datasets
redundancy reduction
training and evaluation
motif atlas
 
model organisms
other modifications
protein networks
functional associations
 
STRING
Jensen, Kuhn et al., Nucleic Acids Research , 2009
630 genomes
genomic context
Korbel et al., Nature Biotechnology , 2004
Korbel et al., Nature Biotechnology , 2004
Korbel et al., Nature Biotechnology , 2004
physical interactions
Jensen & Bork, Science , 2008
genetic interactions
Beyer et al., Nature Reviews Genetics , 2007
gene coexpression
 
curated knowledge
Letunic & Bork, Trends in Biochemical Sciences , 2008
literature mining
>10 km
 
confidence scores
cross-species integration
visualization
Frishman et al., Modern Genome Annotation , 2009
small molecules
STITCH
Kuhn et al., Nucleic Acids Research , 2008
kinase inhibitor screens
Fedorov et al., PNAS , 2007
augmented browsing
Reflect
 
collaborate publishers
 
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larsjuhljensen

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Large-scale data and text mining