visualization of large-scaleprotein and disease networks
DESCRIPTION
Visualization of large-scaleprotein and disease networksTRANSCRIPT
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Visualization of large-scale
protein and disease networks
Lars Juhl Jensen
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the mitotic cell cycle
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grow and divide
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one cell
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two cells
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four phases
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G1 phase
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growth
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S phase
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DNA replication
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G2 phase
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growth
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M phase
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cell division
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cell culture
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synchronization
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microarrays
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time courses
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Gauthier et al., Nucleic Acids Research, 2007
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cycling genes
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single-number summary
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time of peak expression
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circular color scale
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system-level visualization
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gene expression
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protein interactions
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temporal network
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de Lichtenberg, Jensen et al., Science, 2005
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discovery
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just-in-time assembly
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de Lichtenberg, Jensen et al., Cell Cycle, 2007
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protein networks
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STRING
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web resource
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functional associations
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heterogeneous evidence
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computational predictions
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genomic context
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Korbel et al., Nature Biotechnology, 2004
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experimental data
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physical interactions
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Jensen & Bork, Science, 2008
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curated knowledge
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pathways
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Letunic & Bork, Trends in Biochemical Sciences, 2008
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text mining
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biomedical literature
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>10 km
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common identifiers
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quality scores
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cross-species transfer
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complex information
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interactive visualization
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string-db.org
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inspect evidence
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explorative analysis
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disease networks
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central health registries
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CPR number
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established in 1968
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national discharge registry
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14 years
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6.2 million patients
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45 million admissions
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68 million records
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119 million diagnosis
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distributions
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gender
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age
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type of hospital encounter
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Jensen et al., Nature Communications, 2014
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temporal correlations
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too many to visualize
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trajectories
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Jensen et al., Nature Communications, 2014
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trajectory networks
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Jensen et al., Nature Communications, 2014
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discovery
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key diagnoses
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Jensen et al., Nature Communications, 2014
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direct medical implications
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summary
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visualization is important
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publishing results
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exploring data
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making discoveries
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Acknowledgments
STRING
Michael Kuhn
Damian Szklarczyk
Andrea Franceschini
Milan Simonovic
Alexander Roth
Sune Pletscher-
Frankild
Jianyi Lin
Pablo Minguez
Christian von Mering
Peer Bork
Cell cycle
Ulrik de Lichtenberg
Thomas Skøt Jensen
Søren Brunak
Peer Bork
Disease networks
Anders Bøck Jensen
Tudor Oprea
Pope Moseley
Søren Brunak