Keystone Symposia Conference | Biomolecular Interaction Networks: Function and Disease

Meeting Program

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Sunday, March 7
3:00 - 7:30 PM	Registration	Vercheres
6:30 - 7:30 PM	Refreshments	Vercheres
Monday, March 8
7:00 - 8:00 AM	Breakfast	Frontenac
8:00 - 11:15 AM	Experimental Identification, Characterization and Verification of Interaction Data Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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
9:20 - 9:40 AM	Coffee Break	Salle de Bal Foyer
11:15 AM-	On Own for Lunch and Recreation
11:15 AM- 1:00 PM	Poster Setup	Salle de Bal
1:00 - 10:00 PM	Poster Viewing	Salle de Bal
4:30 - 5:00 PM	Coffee Available	Vercheres
5:00 - 7:00 PM	Biomolecular Network Architecture and Biological Function of the Cell Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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
7:00 - 8:00 PM	Social Hour w/ Lite Bites	Salle de Bal Foyer
7:30 - 10:00 PM	Poster Session 1 Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010	Salle de Bal
Tuesday, March 9
7:00 - 8:00 AM	Breakfast	Frontenac
8:00 - 11:15 AM	General Principles of Molecular Recognition and Binding Specificity Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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, National Center for Biotechnology Information, NIH, 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
	M. Madan Babu, University of Cambridge, 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, USA Short Talk: Using Correlated Evolution of Interacting Protein Domains to Predict their Interactions
9:20 - 9:40 AM	Coffee Break	Vercheres
11:15 AM-	On Own for Lunch and Recreation
11:15 AM- 1:00 PM	Poster Setup	Salle de Bal
1:00 - 10:00 PM	Poster Viewing	Salle de Bal
4:30 - 5:00 PM	Coffee Available	Vercheres
5:00 - 7:00 PM	From Molecular Interaction Networks to Function Prediction Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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
	Marc Vidal†, Dana Farber Cancer Institute and Harvard Medical School Interactome Networks: The Next Decade
	Saikat Chakrabarti, Indian Institute of Chemical Biology, India Short Talk: Connecting the Functional Dots in Coevolutionary Networks
7:00 - 8:00 PM	Social Hour w/ Lite Bites	Salle de Bal Foyer
7:30 - 10:00 PM	Poster Session 2 Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010	Salle de Bal
Wednesday, March 10
7:00 - 8:00 AM	Breakfast	Frontenac
8:00 - 11:15 AM	Disease Interactome: Disease-Associated Genes, Disease Mutations and Protein Interactions Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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, Columbia University, 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, The Netherlands Short Talk: Function and Evolution of Asymmetric Protein Associations
9:20 - 9:40 AM	Coffee Break	Vercheres
11:15 AM-	On Own for Lunch and Recreation
4:30 - 5:00 PM	Coffee Available	Vercheres
5:00 - 7:00 PM	Evolution of Biomolecular Networks Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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 G. Ideker, University of California, San Diego, USA Comparative Analysis of Protein Networks
	Anna Panchenko, National Center for Biotechnology Information, NIH, USA Protein Complexes: Evolution and Intrinsic Disorder
	Sarah Teichmann, MRC Laboratory of Molecular Biology, 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
7:00 - 8:00 PM	Social Hour w/ Lite Bites	Salle de Bal Foyer
Thursday, March 11
7:00 - 8:00 AM	Breakfast	Frontenac
8:00 - 11:15 AM	Linking Regulatory Networks to Cellular Function Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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
9:20 - 9:40 AM	Coffee Break	Vercheres
11:15 AM-	On Own for Lunch and Recreation
4:30 - 5:00 PM	Coffee Available	Vercheres
5:00 - 7:00 PM	Regulatory Networks and Genetic Polymorphism Registered attendees for this meeting can view Abstracts for this session starting on 02/07/2010 NOTE: 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
	Eric Schadt, Pacific Biosciences, USA Variations in DNA Elucidate Molecular Networks that Cause Disease
	Dana Pe'er, Columbia University, 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
7:00 - 8:00 PM	Social Hour w/ Lite Bites	Jacques Cartier
8:00 - 11:00 PM	Entertainment	Jacques Cartier
Friday, March 12
	Departure
*=Session Chair †=Speaker invited, not yet responded.

We gratefully acknowledge support for this conference from:

The 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.

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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.

Biomolecular Interaction Networks: Function and Disease (C1)