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This meeting took place in 2010



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Biomolecular Interaction Networks: Function and Disease (C1)


Organizer(s) Anna Panchenko, Teresa Przytycka and Andrea Califano
March 7—12, 2010
Fairmont Le Château Frontenac • Québec, Québec Canada
Abstract Deadline: Nov 9, 2009
Late Abstract Deadline: Dec 7, 2009
Scholarship Deadline: Nov 9, 2009
Early Registration Deadline: Jan 7, 2010

Supported by The Directors' Fund

Summary of Meeting:
The aim of this symposium is to bring together researchers from different fields of computational and experimental biology, to discuss the use of biomolecular interaction networks to study cell function in both physiological and pathological contexts. These interaction maps, also known as interactomes, model protein-protein, protein-DNA and protein-small molecule interaction networks either within an organism or within specific cellular contexts. The function of proteins, nucleic acids, and other biomolecules can only be defined through their interactions in vivo. Such biochemical interactions – including those involved in signal transduction, transcriptional and translational regulation, as well as in the assembly of large molecular complexes – are astonishing in their magnitude and diversity. For instance, it has been shown that most proteins interact with multiple partners, forming intricate interaction networks. Similarly, individual transcription factor can bind to tens of thousands of genomic sites and regulate the expression of thousands of genes, both in isolation and in combinatorial fashion. Regulatory interactions play a key role in determining cellular differentiation, in maintaining cellular and organism homeostasis, and in triggering abnormal differentiation events leading to human disease including cancer. Not surprisingly, even slight genetic and epigenetic perturbations of these regulatory pathways can trigger macroscopic changes in normal cell physiology and lead to disease. Due to the abundance of experimental data, researchers are starting to uncover some general rules and principles underlying molecular interaction networks: their topological properties, the relationships between their components, evolutionary conservation and divergence, and their role in maintaining specific cellular functions and processes. Despite significant advances, however, knowledge about the distinct functional roles of many proteins is still elusive. Thus, interaction networks have emerged as exceedingly useful tools in predicting context-specific molecular function based on knowledge of upstream regulators, cognate binding partners, and downstream regulated targets. Furthermore, molecular interaction networks are starting to provide a unique integrative context to study additional disease-related genetic and epigenetic data, including single nucleotide mutations and polymorphisms, gene copy number alterations and complex, polygenic diseases.

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Conference Program    Print  |   View meeting in 12 hr (am/pm) time


SUNDAY, MARCH 7

15:00—19:30
Registration

Vercheres
15:00—19:30
Refreshments

Vercheres

MONDAY, MARCH 8

07:00—08:00
Breakfast

Frontenac
08:00—11:15
Experimental Identification, Characterization and Verification of Interaction Data
Meeting has ended...abstracts no longer viewable online.
This session will describe different experimental techniques of biomolecular interaction identification, will discuss the main promises and pitfalls of different methods and present several approaches to verify and validate the diverse experimental data.

Salle de Bal
* Ruth Nussinov, National Cancer Institute and Tel Aviv University, USA

Anne-Claude Gavin, European Molecular Biology Laboratory, Germany
Biomolecular Networks from Proteins to Small Molecules

Nevan J. Krogan, University of California, San Francisco, USA
Functional Insights from Protein-Protein and Genetic Interaction Maps

Douglas A. Lauffenburger, Massachusetts Institute of Technology, USA
Integrated Experimental and Computational Approaches to Dissect Cell Response to Stimuli

Aimee Dudley, Institute for Systems Biology, USA
Systems Genetics Approaches to Complex Traits and Non-linear Interactions

Sebastian Kühner, European Molecular Biology Laboratory - EMBL, Germany
Short Talk: Proteome Organization in a Genome-Reduced Bacterium

Curtis Huttenhower, Harvard School of Public Health, USA
Short Talk: Computational Methodology for Microbial and Metagenomic Characterization using Large Scale Functional Genomic Data Integration

09:20—09:40
Coffee Break

Salle de Bal Foyer
11:15
On Own for Lunch and Recreation

11:15—13:00
Poster Setup

Salle de Bal
13:00—22:00
Poster Viewing

Salle de Bal
16:30—17:00
Coffee Available

Vercheres
17:00—19:00
Biomolecular Network Architecture and Biological Function of the Cell
Meeting has ended...abstracts no longer viewable online.
This session will focus on the characterization of dynamic and functional properties of regulatory and signaling networks. In particular, speakers will discuss genomic and genetic components of transcriptional networks in yeast and human, with a particular emphasis on the perturbations of regulatory networks leading to disease phenotypes.

Salle de Bal
* Ivan Ovcharenko, National Institutes of Health, USA

Edward M. Marcotte, University of Texas at Austin, USA
Linking Genes to Traits Using Network-Guided Genetics

Shoshana Wodak, Hospital for Sick Children, Research Institute, Canada
Modularity of the Transcriptional Regulation of Protein Complexes in Yeast

Hunter B. Fraser, Stanford University, USA
Widespread Adaptive Evolution of Gene Expression

Raja Jothi, NIEHS, National Institutes of Health, USA
Short Talk: Genomic Analysis Reveals a Tight Link between Transcription Factor Dynamics and Regulatory Network Architecture

19:00—20:00
Social Hour with Lite Bites

Salle de Bal Foyer
19:30—22:00
Poster Session 1

Salle de Bal

TUESDAY, MARCH 9

07:00—08:00
Breakfast

Frontenac
08:00—11:15
General Principles of Molecular Recognition and Binding Specificity
Meeting has ended...abstracts no longer viewable online.
This session will highlight the principles of protein recognition, the properties of interaction interfaces in relation to diseases. In particular, it will highlight the recent analyses on specific sequence and structural features of interaction interfaces and discuss the mechanisms of regulation of protein activity and binding selectivity through conformational selection and intrinsic disorder.

Salle de Bal
* Anna Panchenko, NIM, National Institutes of Health, USA

Ruth Nussinov, National Cancer Institute and Tel Aviv University, USA
Protein-Protein Interactions: What is the Preferred Way for Proteins to Interact?

Barry Honig, Columbia University / HHMI, USA
On the Nature of Protein Fold Space: Extracting Functional Information from Apparently Remote Structural Neighbors

Madan Babu Mohan, MRC Laboratory of Molecular Biology, UK
Intrinsically Unstructured Proteins: Regulation and Disease

Anna Tramontano, University of Rome, La Sapienza, Italy
Antibody Structure Prediction: Implications and Applications

Brian Joughin, Massachusetts Institute of Technology, USA
Short Talk: Examination of the Interpositional Dependence of Kinase Specificity on Substrate Sequence

Maricel G. Kann, University of Maryland Baltimore County, USA
Short Talk: Using Correlated Evolution of Interacting Protein Domains to Predict their Interactions

09:20—09:40
Coffee Break

Vercheres
11:15
On Own for Lunch and Recreation

11:15—13:00
Poster Setup

Salle de Bal
13:00—22:00
Poster Viewing

Salle de Bal
16:30—17:00
Coffee Available

Vercheres
17:00—19:00
From Molecular Interaction Networks to Function Prediction
Meeting has ended...abstracts no longer viewable online.
This session will focus on inferring and characterizing cellular functions and functional moonlighting within the context of different types of interactions, and will underline computational methods to predict protein interactions and protein function.

Salle de Bal
* Edward M. Marcotte, University of Texas at Austin, USA

Mona Singh, Princeton University, USA
Analyzing and Interrogating Protein Interaction Maps via Network Schemas

Alfonso Valencia, Spanish National Cancer Research Centre, Spain
Coevolutionary Information in the Prediction of Global Interactomes and Interaction Regions

Michael Cusick, Dana-Farber Cancer Institute, USA
Interactome Networks: The Next Decade

Saikat Chakrabarti, Indian Institute of Chemical Biology, India
Short Talk: Connecting the Functional Dots in Coevolutionary Networks

19:00—20:00
Social Hour with Lite Bites

Salle de Bal Foyer
19:30—22:00
Poster Session 2

Salle de Bal

WEDNESDAY, MARCH 10

07:00—08:00
Breakfast

Frontenac
08:00—11:15
Disease Interactome: Disease-Associated Genes, Disease Mutations and Protein Interactions
Meeting has ended...abstracts no longer viewable online.
This session will highlight the approach to link disease networks with the experimental biomolecular interaction networks, predict disease associated genes, and elucidate the role of polymorphisms in the manifestation of different diseases.

Salle de Bal
* Dana Pe'er, Memorial Sloan Kettering Cancer Center, USA

Andrea Califano, Columbia University, USA
A Molecular Interaction Networks Elucidates Master Regulators of the Mesenchymal Transformation of High-Grade Glioma

Aviv Bergman, Albert Einstein College of Medicine, USA
Evolutionary Capacitance as a General Feature of Complex Gene Networks

Teresa M. Przytycka, NCBI, NLM, National Institutes of Health, USA
Gene Regulation in the Context of Variations in DNA Sequence and Structure; Relation to Diseases

Olga G. Troyanskaya, Princeton University, USA
From Integrated Functional Networks to Understanding Disease

Christina S. Leslie, Memorial Sloan-Kettering Cancer Center, USA
Short Talk: Inferring Transcriptional and microRNA-mediated Regulatory Programs in Glioblastoma

Richard Notebaart, Radboud University Nijmegen Medical Centre, Netherlands
Short Talk: Function and Evolution of Asymmetric Protein Associations

09:20—09:40
Coffee Break

Vercheres
11:15
On Own for Lunch and Recreation

16:30—17:00
Coffee Available

Vercheres
17:00—19:00
Evolution of Biomolecular Networks
Meeting has ended...abstracts no longer viewable online.
This session will give an overview of recent achievements in comparative analysis of protein-protein and protein-DNA interactions in different organisms, their evolutionary conservation (protein-protein interologs and protein-DNA regulogs), evolution of protein binding patterns.

Salle de Bal
* Shoshana Wodak, Hospital for Sick Children, Research Institute, Canada

Trey Ideker, University of California, San Diego, USA
Comparative Analysis of Protein Networks

Anna Panchenko, NIM, National Institutes of Health, USA
Protein Complexes: Evolution and Intrinsic Disorder

Sarah Teichmann, Wellcome Trust Sanger Institute, UK
Evolution and Assembly of Homomeric Protein Complexes

Emmanuel D. Levy, Universite de Montreal, Canada
Short Talk: Are all Protein-Protein Interactions Functional? Lessons from Evolution

19:00—20:00
Social Hour with Lite Bites

Salle de Bal Foyer

THURSDAY, MARCH 11

07:00—08:00
Breakfast

Frontenac
08:00—11:15
Linking Regulatory Networks to Cellular Function
Meeting has ended...abstracts no longer viewable online.
This session focuses on systems approaches to indentify, predict and analyze signal transduction networks in general and posttranslational modification networks in particular.

Salle de Bal
* Hunter B. Fraser, Stanford University, USA

Tony Pawson, Samuel Lunenfeld Research Institute, Canada
Proteomic Analysis of Bidirectional Signaling Networks

Gustavo Stolovitzky, IBM, USA
Systems Biology of Small and Large Scale Gene Regulatory Networks

Eric H. Davidson, California Institute of Technology, USA
Evolutionary Plasticity of Developmental Gene Regulatory Network Architecture

Yitzhak Pilpel, Weizmann Institute of Science, Israel
Adaptive Prediction of Environmental Changes by Microorganisms

Mark D. Biggin, Lawrence Berkeley National Laboratory, USA
Short Talk: Evidence for Quantitative Transcription Networks

Sarath Chandra Janga, MRC Laboratory of Molecular Biology, UK
Short Talk: Dissecting the Expression Dynamics of RNA-Binding Proteins in Posttranscriptional Regulatory Networks

09:20—09:40
Coffee Break

Vercheres
11:15
On Own for Lunch and Recreation

16:30—17:00
Coffee Available

Vercheres
17:00—19:00
Regulatory Networks and Genetic Polymorphism
Meeting has ended...abstracts no longer viewable online.
This session will focus on the use of transcript abundances as quantitative traits. In particular, the speakers will focus on study of expression polymorphism in combination with other system biology approaches to delineate transcriptional mechanism and elucidate the role of disease genes.

Salle de Bal
* Teresa M. Przytycka, NCBI, NLM, National Institutes of Health, USA

Ivan Ovcharenko, National Institutes of Health, USA
Genome-Wide Discovery of Human Heart Enhancers

Dana Pe'er, Memorial Sloan Kettering Cancer Center, USA
Driving Mutations: Lessons from Yeast and Cancer

Rachel B. Brem, University of California, Berkeley, USA
Models of Speciation and Adaptation in Fungi

Gregory Hannum, University of California, San Diego, USA
Short Talk: Genome-Wide Association Data Reveal a Global Map of Genetic Interactions Amongst Protein Complexes

19:00—20:00
Social Hour with Lite Bites

Jacques Cartier
20:00—23:00
Entertainment

Jacques Cartier

FRIDAY, MARCH 12

 
Departure


*Session Chair †Invited, not yet responded.



We gratefully acknowledge support for this conference from:


Directors' Fund


These generous unrestricted gifts allow our Directors to schedule meetings in a wide variety of important areas, many of which are in the early stages of research.

Click here to view all of the donors who support the Directors' Fund.



We gratefully acknowledge the generous grant for this conference provided by:


National Institutes of Health

Grant No. 1R13CA144363-01




We gratefully acknowledge additional support for this conference from:

BioMarin Pharmaceutical Inc.

We appreciate the organizations that provide Keystone Symposia with additional support, such as marketing and advertising:

Pubget Inc.

Special thanks to the following for their support of Keystone Symposia initiatives to increase participation at this meeting by scientists from underrepresented backgrounds:


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Phone:+1 970-262-2690

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Phone:+1 970-262-2676