SlideShare a Scribd company logo

Protein networks: A basis for large-scale data mining

•Download as PPT, PDF•
•
Lars Juhl Jensen
Lars Juhl Jensen
Technology
1 of 84
Protein networks A basis for large-scale data mining Lars Juhl Jensen
Phase 1 association networks
who?
STRING
Jensen, Kuhn et al., Nucleic Acids Research, 2009
genomic context
gene fusion
Korbel et al., Nature Biotechnology, 2004
conserved neighborhood
Korbel et al., Nature Biotechnology, 2004
phylogenetic profiles
Korbel et al., Nature Biotechnology, 2004
gene coexpression
protein interactions
Jensen & Bork, Science, 2008
genetic interactions
Beyer et al., Nature Reviews Genetics, 2007
curated knowledge
Letunic & Bork, Trends in Biochemical Sciences, 2008
literature mining
>10 km
co-mentioning
NLP Natural Language Processing
Pafilis, O’Donoghue, Jensen et al., Nature Biotechnology, 2009
confidence scores
von Mering et al., Nucleic Acids Research, 2005
transfer by orthology
probabilistic integration
Frishman et al., Modern Genome Annotation, 2009
Phase 2 signaling networks
what?
phosphoproteomics
signaling events
sequence motifs
Miller, Jensen et al., Science Signaling, 2008
NetPhorest
Miller, Jensen et al., Science Signaling, 2008
NetworKIN
Linding, Jensen, Ostheimer et al., Cell, 2007
benchmarking
Linding, Jensen, Ostheimer et al., Cell, 2007
context is crucial
use cases
DNA damage response
Linding, Jensen, Ostheimer et al., Cell, 2007
cell-cycle kinases
Olsen, Vermeulen, Santamaria, Kumar et al., Science Signaling, 2010
Phase 3 dynamic networks
when?
cell-cycle regulation
microarray time courses
Gauthier et al., Nucleic Acids Research, 2007
protein interactions
temporal network
de Lichtenberg, Jensen et al., Science, 2005
de Lichtenberg, Jensen et al., Science, 2005
just-in-time assembly
de Lichtenberg, Jensen et al., Cell Cycle, 2007
evolutionary flexibility
individual genes
Jensen, Jensen, de Lichtenberg et al., Nature, 2006
protein complexes
Jensen, Jensen, de Lichtenberg et al., Nature, 2006
phosphorylation
co-evolution
Jensen, Jensen, de Lichtenberg et al., Nature, 2006
summary
networks
data integration
specific predictions
systems properties
thank you!
Acknowledgments NetPhorest.info – Rune Linding – Martin Lee Miller – Francesca Diella – Claus Jørgensen – Michele Tinti – Lei Li – Marilyn Hsiung – Sirlester A. Parker – Jennifer Bordeaux – Thomas Sicheritz-Pontén – Marina Olhovsky – Adrian Pasculescu – Jes Alexander – Stefan Knapp – Nikolaj Blom – Peer Bork – Shawn Li – Gianni Cesareni – Tony Pawson – Benjamin E. Turk – Michael B. Yaffe – Søren Brunak STRING-DB.org – Christian von Mering – Damian Szklarczyk – Michael Kuhn – Manuel Stark – Samuel Chaffron – Chris Creevey – Jean Muller – Tobias Doerks – Philippe Julien – Alexander Roth – Milan Simonovic – Jan Korbel – Berend Snel – Martijn Huynen – Peer Bork Cyclebase.org – Ulrik de Lichtenberg – Thomas Skøt Jensen – Nicholas Paul Gauthier – Rasmus Wernersson – Søren Brunak NetworKIN.info – Rune Linding – Heiko Horn – Gerard Ostheimer – Martin Lee Miller – Francesca Diella – Karen Colwill – Jing Jin – Pavel Metalnikov – Vivian Nguyen – Adrian Pasculescu – Jin Gyoon Park – Leona D. Samson – Rob Russell – Peer Bork – Michael Yaffe – Tony Pawson
larsjuhljensen

Recommended

Protein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningProtein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningLars Juhl Jensen
 
Systems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningSystems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningLars Juhl Jensen
 
Protein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningProtein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data mining
Lars Juhl Jensen
 
Large-scale data and text mining
Large-scale data and text miningLarge-scale data and text mining
Large-scale data and text mining
Lars Juhl Jensen
 
Protein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningProtein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data mining
Lars Juhl Jensen
 
Unraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integrationUnraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integration
Lars Juhl Jensen
 
Protein–protein interaction networks
Protein–protein interaction networksProtein–protein interaction networks
Protein–protein interaction networks
Lars Juhl Jensen
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsLars Juhl Jensen
 

Recommended

Protein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningProtein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningLars Juhl Jensen
 
Systems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningSystems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningLars Juhl Jensen
 
Protein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningProtein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data mining
Lars Juhl Jensen
 
Large-scale data and text mining
Large-scale data and text miningLarge-scale data and text mining
Large-scale data and text mining
Lars Juhl Jensen
 
Protein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data miningProtein networks: A basis for large-scale data mining
Protein networks: A basis for large-scale data mining
Lars Juhl Jensen
 
Unraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integrationUnraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integration
Lars Juhl Jensen
 
Protein–protein interaction networks
Protein–protein interaction networksProtein–protein interaction networks
Protein–protein interaction networks
Lars Juhl Jensen
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsLars Juhl Jensen
 
Large-scale data and text mining
Large-scale data and text miningLarge-scale data and text mining
Large-scale data and text mining
Lars Juhl Jensen
 
From phosphoproteomics to signaling networks
From phosphoproteomics to signaling networksFrom phosphoproteomics to signaling networks
From phosphoproteomics to signaling networks
Lars Juhl Jensen
 
Unraveling signaling networks by data integration
Unraveling signaling networks by data integrationUnraveling signaling networks by data integration
Unraveling signaling networks by data integration
Lars Juhl Jensen
 
Mining and communicating biomedical knowledge
Mining and communicating biomedical knowledgeMining and communicating biomedical knowledge
Mining and communicating biomedical knowledgeLars Juhl Jensen
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningLars Juhl Jensen
 
Unraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integrationUnraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integration
Lars Juhl Jensen
 
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Vic Shao-Chih Chiang
 
Biology in Focus - Chapter 39
Biology in Focus - Chapter 39Biology in Focus - Chapter 39
Biology in Focus - Chapter 39
mpattani
 
Using networks to derive function
Using networks to derive functionUsing networks to derive function
Using networks to derive function
Lars Juhl Jensen
 
yeti-2017-poster-3
yeti-2017-poster-3yeti-2017-poster-3
yeti-2017-poster-3Rebecca Simms
 
Lecture 1
Lecture 1Lecture 1
Lecture 1
Owali Shawon
 
Bioinformatics A Biased Overview
Bioinformatics A Biased OverviewBioinformatics A Biased Overview
Bioinformatics A Biased Overview
Philip Bourne
 
Biology in Focus - Chapter 9
Biology in Focus - Chapter 9Biology in Focus - Chapter 9
Biology in Focus - Chapter 9
mpattani
 
Senior Thesis presentation
Senior Thesis presentationSenior Thesis presentation
Senior Thesis presentationDwaynie
 
Data Integration and Systems Biology
Data Integration and Systems BiologyData Integration and Systems Biology
Data Integration and Systems Biology
Lars Juhl Jensen
 
Introduction to DGIST
Introduction to DGISTIntroduction to DGIST
Introduction to DGIST
Moonsuk Seon
 
Biology in Focus Chapter 4
Biology in Focus Chapter 4Biology in Focus Chapter 4
Biology in Focus Chapter 4
mpattani
 
Network biology
Network biologyNetwork biology
Network biologyLars Juhl Jensen
 
Systems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningSystems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningLars Juhl Jensen
 
Unraveling signal transduction networks through data integration
Unraveling signal transduction networks through data integrationUnraveling signal transduction networks through data integration
Unraveling signal transduction networks through data integration
Lars Juhl Jensen
 
Large-scale integration of data and text
Large-scale integration of data and textLarge-scale integration of data and text
Large-scale integration of data and textLars Juhl Jensen
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsLars Juhl Jensen
 

More Related Content

What's hot

Large-scale data and text mining
Large-scale data and text miningLarge-scale data and text mining
Large-scale data and text mining
Lars Juhl Jensen
 
From phosphoproteomics to signaling networks
From phosphoproteomics to signaling networksFrom phosphoproteomics to signaling networks
From phosphoproteomics to signaling networks
Lars Juhl Jensen
 
Unraveling signaling networks by data integration
Unraveling signaling networks by data integrationUnraveling signaling networks by data integration
Unraveling signaling networks by data integration
Lars Juhl Jensen
 
Mining and communicating biomedical knowledge
Mining and communicating biomedical knowledgeMining and communicating biomedical knowledge
Mining and communicating biomedical knowledgeLars Juhl Jensen
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningLars Juhl Jensen
 
Unraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integrationUnraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integration
Lars Juhl Jensen
 
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Vic Shao-Chih Chiang
 
Biology in Focus - Chapter 39
Biology in Focus - Chapter 39Biology in Focus - Chapter 39
Biology in Focus - Chapter 39
mpattani
 
Using networks to derive function
Using networks to derive functionUsing networks to derive function
Using networks to derive function
Lars Juhl Jensen
 
Lecture 1
Lecture 1Lecture 1
Lecture 1
Owali Shawon
 
Bioinformatics A Biased Overview
Bioinformatics A Biased OverviewBioinformatics A Biased Overview
Bioinformatics A Biased Overview
Philip Bourne
 
Biology in Focus - Chapter 9
Biology in Focus - Chapter 9Biology in Focus - Chapter 9
Biology in Focus - Chapter 9
mpattani
 
Senior Thesis presentation
Senior Thesis presentationSenior Thesis presentation
Senior Thesis presentationDwaynie
 
Data Integration and Systems Biology
Data Integration and Systems BiologyData Integration and Systems Biology
Data Integration and Systems Biology
Lars Juhl Jensen
 
Introduction to DGIST
Introduction to DGISTIntroduction to DGIST
Introduction to DGIST
Moonsuk Seon
 
Biology in Focus Chapter 4
Biology in Focus Chapter 4Biology in Focus Chapter 4
Biology in Focus Chapter 4
mpattani
 

What's hot (17)

Large-scale data and text mining
Large-scale data and text miningLarge-scale data and text mining
Large-scale data and text mining
 
From phosphoproteomics to signaling networks
From phosphoproteomics to signaling networksFrom phosphoproteomics to signaling networks
From phosphoproteomics to signaling networks
 
Unraveling signaling networks by data integration
Unraveling signaling networks by data integrationUnraveling signaling networks by data integration
Unraveling signaling networks by data integration
 
Mining and communicating biomedical knowledge
Mining and communicating biomedical knowledgeMining and communicating biomedical knowledge
Mining and communicating biomedical knowledge
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data mining
 
Unraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integrationUnraveling signaling networks by large-scale data integration
Unraveling signaling networks by large-scale data integration
 
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
Behavior- and Modality-General Representation of Confidence in Orbitofrontal ...
 
Biology in Focus - Chapter 39
Biology in Focus - Chapter 39Biology in Focus - Chapter 39
Biology in Focus - Chapter 39
 
Using networks to derive function
Using networks to derive functionUsing networks to derive function
Using networks to derive function
 
yeti-2017-poster-3
yeti-2017-poster-3yeti-2017-poster-3
yeti-2017-poster-3
 
Lecture 1
Lecture 1Lecture 1
Lecture 1
 
Bioinformatics A Biased Overview
Bioinformatics A Biased OverviewBioinformatics A Biased Overview
Bioinformatics A Biased Overview
 
Biology in Focus - Chapter 9
Biology in Focus - Chapter 9Biology in Focus - Chapter 9
Biology in Focus - Chapter 9
 
Senior Thesis presentation
Senior Thesis presentationSenior Thesis presentation
Senior Thesis presentation
 
Data Integration and Systems Biology
Data Integration and Systems BiologyData Integration and Systems Biology
Data Integration and Systems Biology
 
Introduction to DGIST
Introduction to DGISTIntroduction to DGIST
Introduction to DGIST
 
Biology in Focus Chapter 4
Biology in Focus Chapter 4Biology in Focus Chapter 4
Biology in Focus Chapter 4
 

Similar to Protein networks: A basis for large-scale data mining

Systems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningSystems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningLars Juhl Jensen
 
Unraveling signal transduction networks through data integration
Unraveling signal transduction networks through data integrationUnraveling signal transduction networks through data integration
Unraveling signal transduction networks through data integration
Lars Juhl Jensen
 
Large-scale integration of data and text
Large-scale integration of data and textLarge-scale integration of data and text
Large-scale integration of data and textLars Juhl Jensen
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsLars Juhl Jensen
 
Unraveling cellular phosphorylation networks using computational biology
Unraveling cellular phosphorylation networks using computational biologyUnraveling cellular phosphorylation networks using computational biology
Unraveling cellular phosphorylation networks using computational biology
Lars Juhl Jensen
 
Integration of heterogeneous data
Integration of heterogeneous dataIntegration of heterogeneous data
Integration of heterogeneous data
Lars Juhl Jensen
 
Protein interaction networks
Protein interaction networksProtein interaction networks
Protein interaction networksLars Juhl Jensen
 
Computational Biology - Signaling networks and drug repositioning
Computational Biology - Signaling networks and drug repositioningComputational Biology - Signaling networks and drug repositioning
Computational Biology - Signaling networks and drug repositioning
Lars Juhl Jensen
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningLars Juhl Jensen
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningLars Juhl Jensen
 
Network biology - A basis for large-scale biomedica data mining
Network biology - A basis for large-scale biomedica data miningNetwork biology - A basis for large-scale biomedica data mining
Network biology - A basis for large-scale biomedica data miningLars Juhl Jensen
 
Network biology: Large-scale data and text mining
Network biology: Large-scale data and text miningNetwork biology: Large-scale data and text mining
Network biology: Large-scale data and text mining
Lars Juhl Jensen
 
Systems biology - Bioinformatics on complete biological systems
Systems biology - Bioinformatics on complete biological systemsSystems biology - Bioinformatics on complete biological systems
Systems biology - Bioinformatics on complete biological systemsLars Juhl Jensen
 
Network biology: Large-scale data and text mining
Network biology: Large-scale data and text miningNetwork biology: Large-scale data and text mining
Network biology: Large-scale data and text miningLars Juhl Jensen
 
Integration of heterogeneous data
Integration of heterogeneous dataIntegration of heterogeneous data
Integration of heterogeneous data
Lars Juhl Jensen
 
Data integration and functional association networks
Data integration and functional association networksData integration and functional association networks
Data integration and functional association networks
Lars Juhl Jensen
 
Network biology: Large-scale data integration and text mining
Network biology: Large-scale data integration and text miningNetwork biology: Large-scale data integration and text mining
Network biology: Large-scale data integration and text miningLars Juhl Jensen
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsLars Juhl Jensen
 

Similar to Protein networks: A basis for large-scale data mining (20)

Network biology
Network biologyNetwork biology
Network biology
 
Systems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data miningSystems biology: Large-scale biomedical data mining
Systems biology: Large-scale biomedical data mining
 
Unraveling signal transduction networks through data integration
Unraveling signal transduction networks through data integrationUnraveling signal transduction networks through data integration
Unraveling signal transduction networks through data integration
 
Large-scale integration of data and text
Large-scale integration of data and textLarge-scale integration of data and text
Large-scale integration of data and text
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomics
 
Disease Systems Biology
Disease Systems BiologyDisease Systems Biology
Disease Systems Biology
 
Unraveling cellular phosphorylation networks using computational biology
Unraveling cellular phosphorylation networks using computational biologyUnraveling cellular phosphorylation networks using computational biology
Unraveling cellular phosphorylation networks using computational biology
 
Integration of heterogeneous data
Integration of heterogeneous dataIntegration of heterogeneous data
Integration of heterogeneous data
 
Protein interaction networks
Protein interaction networksProtein interaction networks
Protein interaction networks
 
Computational Biology - Signaling networks and drug repositioning
Computational Biology - Signaling networks and drug repositioningComputational Biology - Signaling networks and drug repositioning
Computational Biology - Signaling networks and drug repositioning
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data mining
 
Network biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data miningNetwork biology: A basis for large-scale biomedical data mining
Network biology: A basis for large-scale biomedical data mining
 
Network biology - A basis for large-scale biomedica data mining
Network biology - A basis for large-scale biomedica data miningNetwork biology - A basis for large-scale biomedica data mining
Network biology - A basis for large-scale biomedica data mining
 
Network biology: Large-scale data and text mining
Network biology: Large-scale data and text miningNetwork biology: Large-scale data and text mining
Network biology: Large-scale data and text mining
 
Systems biology - Bioinformatics on complete biological systems
Systems biology - Bioinformatics on complete biological systemsSystems biology - Bioinformatics on complete biological systems
Systems biology - Bioinformatics on complete biological systems
 
Network biology: Large-scale data and text mining
Network biology: Large-scale data and text miningNetwork biology: Large-scale data and text mining
Network biology: Large-scale data and text mining
 
Integration of heterogeneous data
Integration of heterogeneous dataIntegration of heterogeneous data
Integration of heterogeneous data
 
Data integration and functional association networks
Data integration and functional association networksData integration and functional association networks
Data integration and functional association networks
 
Network biology: Large-scale data integration and text mining
Network biology: Large-scale data integration and text miningNetwork biology: Large-scale data integration and text mining
Network biology: Large-scale data integration and text mining
 
Advanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomicsAdvanced bioinformatics methods for proteomics
Advanced bioinformatics methods for proteomics
 

More from Lars Juhl Jensen

One tagger, many uses: Illustrating the power of dictionary-based named entit...
One tagger, many uses: Illustrating the power of dictionary-based named entit...One tagger, many uses: Illustrating the power of dictionary-based named entit...
One tagger, many uses: Illustrating the power of dictionary-based named entit...
Lars Juhl Jensen
 
One tagger, many uses: Simple text-mining strategies for biomedicine
One tagger, many uses: Simple text-mining strategies for biomedicineOne tagger, many uses: Simple text-mining strategies for biomedicine
One tagger, many uses: Simple text-mining strategies for biomedicine
Lars Juhl Jensen
 
Extract 2.0: Text-mining-assisted interactive annotation
Extract 2.0: Text-mining-assisted interactive annotationExtract 2.0: Text-mining-assisted interactive annotation
Extract 2.0: Text-mining-assisted interactive annotation
Lars Juhl Jensen
 
Network visualization: A crash course on using Cytoscape
Network visualization: A crash course on using CytoscapeNetwork visualization: A crash course on using Cytoscape
Network visualization: A crash course on using Cytoscape
Lars Juhl Jensen
 
STRING & STITCH : Network integration of heterogeneous data
STRING & STITCH : Network integration of heterogeneous dataSTRING & STITCH : Network integration of heterogeneous data
STRING & STITCH : Network integration of heterogeneous data
Lars Juhl Jensen
 
Biomedical text mining: Automatic processing of unstructured text
Biomedical text mining: Automatic processing of unstructured textBiomedical text mining: Automatic processing of unstructured text
Biomedical text mining: Automatic processing of unstructured text
Lars Juhl Jensen
 
Medical network analysis: Linking diseases and genes through data and text mi...
Medical network analysis: Linking diseases and genes through data and text mi...Medical network analysis: Linking diseases and genes through data and text mi...
Medical network analysis: Linking diseases and genes through data and text mi...
Lars Juhl Jensen
 
Network Biology: A crash course on STRING and Cytoscape
Network Biology: A crash course on STRING and CytoscapeNetwork Biology: A crash course on STRING and Cytoscape
Network Biology: A crash course on STRING and Cytoscape
Lars Juhl Jensen
 
Cellular networks
Cellular networksCellular networks
Cellular networks
Lars Juhl Jensen
 
Cellular Network Biology: Large-scale integration of data and text
Cellular Network Biology: Large-scale integration of data and textCellular Network Biology: Large-scale integration of data and text
Cellular Network Biology: Large-scale integration of data and text
Lars Juhl Jensen
 
Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...
Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...
Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...
Lars Juhl Jensen
 
STRING & related databases: Large-scale integration of heterogeneous data
STRING & related databases: Large-scale integration of heterogeneous dataSTRING & related databases: Large-scale integration of heterogeneous data
STRING & related databases: Large-scale integration of heterogeneous data
Lars Juhl Jensen
 
Tagger: Rapid dictionary-based named entity recognition
Tagger: Rapid dictionary-based named entity recognitionTagger: Rapid dictionary-based named entity recognition
Tagger: Rapid dictionary-based named entity recognition
Lars Juhl Jensen
 
Network Biology: Large-scale integration of data and text
Network Biology: Large-scale integration of data and textNetwork Biology: Large-scale integration of data and text
Network Biology: Large-scale integration of data and text
Lars Juhl Jensen
 
Medical text mining: Linking diseases, drugs, and adverse reactions
Medical text mining: Linking diseases, drugs, and adverse reactionsMedical text mining: Linking diseases, drugs, and adverse reactions
Medical text mining: Linking diseases, drugs, and adverse reactions
Lars Juhl Jensen
 
Network biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and textNetwork biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and text
Lars Juhl Jensen
 
Medical data and text mining: Linking diseases, drugs, and adverse reactions
Medical data and text mining: Linking diseases, drugs, and adverse reactionsMedical data and text mining: Linking diseases, drugs, and adverse reactions
Medical data and text mining: Linking diseases, drugs, and adverse reactions
Lars Juhl Jensen
 
Cellular Network Biology
Cellular Network BiologyCellular Network Biology
Cellular Network Biology
Lars Juhl Jensen
 
Network biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and textNetwork biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and text
Lars Juhl Jensen
 
Biomarker bioinformatics: Network-based candidate prioritization
Biomarker bioinformatics: Network-based candidate prioritizationBiomarker bioinformatics: Network-based candidate prioritization
Biomarker bioinformatics: Network-based candidate prioritization
Lars Juhl Jensen
 

More from Lars Juhl Jensen (20)

One tagger, many uses: Illustrating the power of dictionary-based named entit...
One tagger, many uses: Illustrating the power of dictionary-based named entit...One tagger, many uses: Illustrating the power of dictionary-based named entit...
One tagger, many uses: Illustrating the power of dictionary-based named entit...
 
One tagger, many uses: Simple text-mining strategies for biomedicine
One tagger, many uses: Simple text-mining strategies for biomedicineOne tagger, many uses: Simple text-mining strategies for biomedicine
One tagger, many uses: Simple text-mining strategies for biomedicine
 
Extract 2.0: Text-mining-assisted interactive annotation
Extract 2.0: Text-mining-assisted interactive annotationExtract 2.0: Text-mining-assisted interactive annotation
Extract 2.0: Text-mining-assisted interactive annotation
 
Network visualization: A crash course on using Cytoscape
Network visualization: A crash course on using CytoscapeNetwork visualization: A crash course on using Cytoscape
Network visualization: A crash course on using Cytoscape
 
STRING & STITCH : Network integration of heterogeneous data
STRING & STITCH : Network integration of heterogeneous dataSTRING & STITCH : Network integration of heterogeneous data
STRING & STITCH : Network integration of heterogeneous data
 
Biomedical text mining: Automatic processing of unstructured text
Biomedical text mining: Automatic processing of unstructured textBiomedical text mining: Automatic processing of unstructured text
Biomedical text mining: Automatic processing of unstructured text
 
Medical network analysis: Linking diseases and genes through data and text mi...
Medical network analysis: Linking diseases and genes through data and text mi...Medical network analysis: Linking diseases and genes through data and text mi...
Medical network analysis: Linking diseases and genes through data and text mi...
 
Network Biology: A crash course on STRING and Cytoscape
Network Biology: A crash course on STRING and CytoscapeNetwork Biology: A crash course on STRING and Cytoscape
Network Biology: A crash course on STRING and Cytoscape
 
Cellular networks
Cellular networksCellular networks
Cellular networks
 
Cellular Network Biology: Large-scale integration of data and text
Cellular Network Biology: Large-scale integration of data and textCellular Network Biology: Large-scale integration of data and text
Cellular Network Biology: Large-scale integration of data and text
 
Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...
Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...
Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...
 
STRING & related databases: Large-scale integration of heterogeneous data
STRING & related databases: Large-scale integration of heterogeneous dataSTRING & related databases: Large-scale integration of heterogeneous data
STRING & related databases: Large-scale integration of heterogeneous data
 
Tagger: Rapid dictionary-based named entity recognition
Tagger: Rapid dictionary-based named entity recognitionTagger: Rapid dictionary-based named entity recognition
Tagger: Rapid dictionary-based named entity recognition
 
Network Biology: Large-scale integration of data and text
Network Biology: Large-scale integration of data and textNetwork Biology: Large-scale integration of data and text
Network Biology: Large-scale integration of data and text
 
Medical text mining: Linking diseases, drugs, and adverse reactions
Medical text mining: Linking diseases, drugs, and adverse reactionsMedical text mining: Linking diseases, drugs, and adverse reactions
Medical text mining: Linking diseases, drugs, and adverse reactions
 
Network biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and textNetwork biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and text
 
Medical data and text mining: Linking diseases, drugs, and adverse reactions
Medical data and text mining: Linking diseases, drugs, and adverse reactionsMedical data and text mining: Linking diseases, drugs, and adverse reactions
Medical data and text mining: Linking diseases, drugs, and adverse reactions
 
Cellular Network Biology
Cellular Network BiologyCellular Network Biology
Cellular Network Biology
 
Network biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and textNetwork biology: Large-scale integration of data and text
Network biology: Large-scale integration of data and text
 
Biomarker bioinformatics: Network-based candidate prioritization
Biomarker bioinformatics: Network-based candidate prioritizationBiomarker bioinformatics: Network-based candidate prioritization
Biomarker bioinformatics: Network-based candidate prioritization
 

Recently uploaded

The Art of the Pitch: WordPress Relationships and Sales
The Art of the Pitch: WordPress Relationships and SalesThe Art of the Pitch: WordPress Relationships and Sales
The Art of the Pitch: WordPress Relationships and Sales
Laura Byrne
 
Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...
Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...
Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...
SOFTTECHHUB
 
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...
Neo4j
 
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!
SOFTTECHHUB
 
UiPath Test Automation using UiPath Test Suite series, part 5
UiPath Test Automation using UiPath Test Suite series, part 5UiPath Test Automation using UiPath Test Suite series, part 5
UiPath Test Automation using UiPath Test Suite series, part 5
DianaGray10
 
How to Get CNIC Information System with Paksim Ga.pptx
How to Get CNIC Information System with Paksim Ga.pptxHow to Get CNIC Information System with Paksim Ga.pptx
How to Get CNIC Information System with Paksim Ga.pptx
danishmna97
 
DevOps and Testing slides at DASA Connect
DevOps and Testing slides at DASA ConnectDevOps and Testing slides at DASA Connect
DevOps and Testing slides at DASA Connect
Kari Kakkonen
 
Essentials of Automations: The Art of Triggers and Actions in FME
Essentials of Automations: The Art of Triggers and Actions in FMEEssentials of Automations: The Art of Triggers and Actions in FME
Essentials of Automations: The Art of Triggers and Actions in FME
Safe Software
 
Large Language Model (LLM) and it’s Geospatial Applications
Large Language Model (LLM) and it’s Geospatial ApplicationsLarge Language Model (LLM) and it’s Geospatial Applications
Large Language Model (LLM) and it’s Geospatial Applications
Rohit Gautam
 
Elizabeth Buie - Older adults: Are we really designing for our future selves?
Elizabeth Buie - Older adults: Are we really designing for our future selves?Elizabeth Buie - Older adults: Are we really designing for our future selves?
Elizabeth Buie - Older adults: Are we really designing for our future selves?
Nexer Digital
 
Free Complete Python - A step towards Data Science
Free Complete Python - A step towards Data ScienceFree Complete Python - A step towards Data Science
Free Complete Python - A step towards Data Science
RinaMondal9
 
PCI PIN Basics Webinar from the Controlcase Team
PCI PIN Basics Webinar from the Controlcase TeamPCI PIN Basics Webinar from the Controlcase Team
PCI PIN Basics Webinar from the Controlcase Team
ControlCase
 
Artificial Intelligence for XMLDevelopment
Artificial Intelligence for XMLDevelopmentArtificial Intelligence for XMLDevelopment
Artificial Intelligence for XMLDevelopment
Octavian Nadolu
 
20240607 QFM018 Elixir Reading List May 2024
20240607 QFM018 Elixir Reading List May 202420240607 QFM018 Elixir Reading List May 2024
20240607 QFM018 Elixir Reading List May 2024
Matthew Sinclair
 
Epistemic Interaction - tuning interfaces to provide information for AI support
Epistemic Interaction - tuning interfaces to provide information for AI supportEpistemic Interaction - tuning interfaces to provide information for AI support
Epistemic Interaction - tuning interfaces to provide information for AI support
Alan Dix
 
RESUME BUILDER APPLICATION Project for students
RESUME BUILDER APPLICATION Project for studentsRESUME BUILDER APPLICATION Project for students
RESUME BUILDER APPLICATION Project for students
KAMESHS29
 
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex ProofszkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs
Alex Pruden
 
Pushing the limits of ePRTC: 100ns holdover for 100 days
Pushing the limits of ePRTC: 100ns holdover for 100 daysPushing the limits of ePRTC: 100ns holdover for 100 days
Pushing the limits of ePRTC: 100ns holdover for 100 days
Adtran
 
Encryption in Microsoft 365 - ExpertsLive Netherlands 2024
Encryption in Microsoft 365 - ExpertsLive Netherlands 2024Encryption in Microsoft 365 - ExpertsLive Netherlands 2024
Encryption in Microsoft 365 - ExpertsLive Netherlands 2024
Albert Hoitingh
 
Uni Systems Copilot event_05062024_C.Vlachos.pdf
Uni Systems Copilot event_05062024_C.Vlachos.pdfUni Systems Copilot event_05062024_C.Vlachos.pdf
Uni Systems Copilot event_05062024_C.Vlachos.pdf
Uni Systems S.M.S.A.
 

Recently uploaded (20)

The Art of the Pitch: WordPress Relationships and Sales
The Art of the Pitch: WordPress Relationships and SalesThe Art of the Pitch: WordPress Relationships and Sales
The Art of the Pitch: WordPress Relationships and Sales
 
Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...
Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...
Why You Should Replace Windows 11 with Nitrux Linux 3.5.0 for enhanced perfor...
 
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...
 
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!
 
UiPath Test Automation using UiPath Test Suite series, part 5
UiPath Test Automation using UiPath Test Suite series, part 5UiPath Test Automation using UiPath Test Suite series, part 5
UiPath Test Automation using UiPath Test Suite series, part 5
 
How to Get CNIC Information System with Paksim Ga.pptx
How to Get CNIC Information System with Paksim Ga.pptxHow to Get CNIC Information System with Paksim Ga.pptx
How to Get CNIC Information System with Paksim Ga.pptx
 
DevOps and Testing slides at DASA Connect
DevOps and Testing slides at DASA ConnectDevOps and Testing slides at DASA Connect
DevOps and Testing slides at DASA Connect
 
Essentials of Automations: The Art of Triggers and Actions in FME
Essentials of Automations: The Art of Triggers and Actions in FMEEssentials of Automations: The Art of Triggers and Actions in FME
Essentials of Automations: The Art of Triggers and Actions in FME
 
Large Language Model (LLM) and it’s Geospatial Applications
Large Language Model (LLM) and it’s Geospatial ApplicationsLarge Language Model (LLM) and it’s Geospatial Applications
Large Language Model (LLM) and it’s Geospatial Applications
 
Elizabeth Buie - Older adults: Are we really designing for our future selves?
Elizabeth Buie - Older adults: Are we really designing for our future selves?Elizabeth Buie - Older adults: Are we really designing for our future selves?
Elizabeth Buie - Older adults: Are we really designing for our future selves?
 
Free Complete Python - A step towards Data Science
Free Complete Python - A step towards Data ScienceFree Complete Python - A step towards Data Science
Free Complete Python - A step towards Data Science
 
PCI PIN Basics Webinar from the Controlcase Team
PCI PIN Basics Webinar from the Controlcase TeamPCI PIN Basics Webinar from the Controlcase Team
PCI PIN Basics Webinar from the Controlcase Team
 
Artificial Intelligence for XMLDevelopment
Artificial Intelligence for XMLDevelopmentArtificial Intelligence for XMLDevelopment
Artificial Intelligence for XMLDevelopment
 
20240607 QFM018 Elixir Reading List May 2024
20240607 QFM018 Elixir Reading List May 202420240607 QFM018 Elixir Reading List May 2024
20240607 QFM018 Elixir Reading List May 2024
 
Epistemic Interaction - tuning interfaces to provide information for AI support
Epistemic Interaction - tuning interfaces to provide information for AI supportEpistemic Interaction - tuning interfaces to provide information for AI support
Epistemic Interaction - tuning interfaces to provide information for AI support
 
RESUME BUILDER APPLICATION Project for students
RESUME BUILDER APPLICATION Project for studentsRESUME BUILDER APPLICATION Project for students
RESUME BUILDER APPLICATION Project for students
 
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex ProofszkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex Proofs
 
Pushing the limits of ePRTC: 100ns holdover for 100 days
Pushing the limits of ePRTC: 100ns holdover for 100 daysPushing the limits of ePRTC: 100ns holdover for 100 days
Pushing the limits of ePRTC: 100ns holdover for 100 days
 
Encryption in Microsoft 365 - ExpertsLive Netherlands 2024
Encryption in Microsoft 365 - ExpertsLive Netherlands 2024Encryption in Microsoft 365 - ExpertsLive Netherlands 2024
Encryption in Microsoft 365 - ExpertsLive Netherlands 2024
 
Uni Systems Copilot event_05062024_C.Vlachos.pdf
Uni Systems Copilot event_05062024_C.Vlachos.pdfUni Systems Copilot event_05062024_C.Vlachos.pdf
Uni Systems Copilot event_05062024_C.Vlachos.pdf
 

Protein networks: A basis for large-scale data mining

Editor's Notes

  1. Integration Automation Collaboration
  2. Atlas of human kinases Atlases for phospho-binding proteins Atlases for model organisms Ubiquitination would be welcome