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Jiro Adachi (Department of Bioinformatics Engineering, Graduate School of Information Science and Technology, Osaka University)
Elucidating the Fitness Landscape of Protein Translation System

Sophia Ananiadou (School of Computer Science, The University of Manchester, UK)
SemText: A semantically enriched information retrieval system for biology

Dorit Arlt (Division of Molecular Genome Analysis, German Cancer Research Center (DKFZ) Heidelberg, Germany)
From whole genome siRNA screens to systems biology: The glycosaminoglycan degradation pathway in cancer metastasis

Sriya Avadhani (Department of Biochemistry and Molecular Biology, University of Massachusetts Amherst, Amherst, USA)
Systems Biology Study of Base Excision Repair Pathway to Improve Therapeutic Gain in Cancer Treatment

Roberto Ávila-Pozos (Área Académica de Matemáticas, Universidad Autónoma del Estado de Hidalgo)
Simulation of the Electrical Activity of the Pancreatic beta Cells Induced by Ingesting of Glucose During an Oral Glucose Tolerance Test

Tigran Bacarian (IGB, UC Ivine)
Integrating system for segmenting and tracking fluorescent objects on the image data of growing cell colonies

Fayez A. Bakery (Department of Medical Malacology Theodor Bilharz Research Institute,Giza.Egypt)
Estimation of free amino acids and protein in bulinus truncatus snail infected with Schistosoma haematobium or Echinoparyphium recurvatum

Mukesh Bansal (Telethon Institute of Genetics and Medicin, Naples, Italy.)
Identification of transcriptional targets from dynamic gene expression profiles: An integrated computational and experimental approach applied to the transcription factor p63

Anastasia Barbina (Department of Clinical Diagnostics, Russian Research Institute for Cardiology, St-Petersburg, Russia.)
A systems analysis of metabolic syndrome in human and the role of gene polymorphisms AGTR1/A1166C, ACE/ID and FGA/T312A in its development

Satabdi Basu (Department of Bioinformatics, Purabi Das School of Information Technology, Bengal Engineering and Science University, Shibpur, Howrah-711 103,)
Bioinformatics analysis of protein domains involved in signal transducer activity in human and mouse

Eric Batchelor (Department of Systems Biology, Harvard Medical School, Boston)
Recurrent Initiation: A Mechanism for Triggering p53 Pulses in Response to DNA Damage

Chase L. Beisel (Division of Chemistry and Chemical Engineering, California Institute of Technology)
Ligand-regulated shRNA switches as programmable network components

Vincenzo Belcastro (Telethon Institute of Genetics and Medicine, Via P. Castellino, Naples, Italy)
An integrative reverse engineering algorithm to infer gene networks from multiple sources of data

Pedro Beltrao (European Molecular Biology Laboratory)
Predicting the binding specificity of peptide binding domains using structural information and the FoldX algorithm

Frank T. Bergmann (Department of Bioengineering, University of Washington, Seattle)
CAD/CAM Software for Synthetic Biology

Aarash Bordbar (Bioengineering Department, University of California, San Diego, La Jolla, CA, USA)
Extending the predictive potential of metabolic genome-scale reconstructions by accounting for the transcriptional and translational network

Elhanan Borenstein (Department of Biological Sciences, Stanford University, Stanford and Santa Fe Institute, Santa Fe)
Large-Scale Reconstruction and Analysis of Growth Environments

Jildau Bouwman (Molecular Cell Physiology, Institute for Molecular Cell Biology (IMC), Vrije Universiteit, Amsterdam, NL)
Regulation of the glycerol pathway during osmotic stress

David K. Breslow (Department of Cellular and Molecular Pharmacology, Howard Hughes Medical Institute, California Institute of Quantitative Biomedical Research, University of California, San Francisco)
A High-Throughput Flow Cytometry-Based Approach to High-Resolution Genetic Interaction Measurements

Yizhi Cai (Virginia Bioinformatics Institute)
GenoCAD.org: A web site to design and verify synthetic genetic constructs derived from standard biological parts

Laurence Calzone (Institut Curie)
BiNoM: A Cytoscape plugin for using and analyzing biological networks

Manuel Cánovas (Dept. Biochemistry and Mol. Biol. B, University of Murcia)
In silico model of the mitochondrial role in the cardiac cell pathology

Ivan Chang (Department of Biomedical Engineering, University of California, Irvine)
A new systems biology model of mitochondrial bioenergetics: Application to mitochondrial pathologies

Peter S. Chang (Department of Chemical Engineering, University of California, Santa Barbara)
Phase Dependent Gating of the Vasoactive Intestinal Polypeptide Signaling Pathway in the Suprachiasmatic Nucleus

Rima Chaudhuri (Center for Pharmaceutical Biotechnology and Dept. of Bioengineering/Bioinformatics Program, University of Illinois at Chicago)
Classification and structural analysis of coronavirus papain-like proteases based on the active site residues of SARS-CoV-PLpro

Arvind K. Chavali (Department of Biomedical Engineering, University of Virginia)
Intra- and inter-cellular network analyses for characterizing pathogen-host interactions

Gal Chechik (Google Research)
Tuned protein variability in yeast metabolism

Chu-Shiang Chen (Center for General Education, National Tsing Hua University, Hsinchu, Taiwan)
Systems Traditional Chinese Medicine

Neil Dalchau (Department of Plant Sciences, University of Cambridge, UK)
Mathematical models of circadian Ca2+ oscillations

Maria Davidich ( Institute for Theoretical Physics, University Bremen, Bremen, Germany )
Robustness of the fission yeast cell cycle network

Adel Dayarian (Department of Physics and BioMaPS Institute for Quantitative Biology, Rutgers University, Piscataway, NJ)
Geometry, Functionality and Robustness: Exploring the Parameter Space of the Segment Polarity Network

Pedro de Atauri (Department of Biochemistry and Molecular Biology, University of Barcelona, Barcelona, Spain)
Energy metabolism of human muscle and training

Domitilla Del Vecchio (Electrical Engineering and Computer Science, Univ. of Michigan)
Modules and Retroactivity: Theoretical Framework, Analysis, and Design

Duygu Dikicioglu (Department of Chemical Engineering, Bogazici University, Istanbul, Turkey)
Dynamic response of Saccharomyces cerevisiae to transient perturbations in ammonia concentration and integration of metabolome and transcriptome data

Marko Djordjevic (Mathematical Biosciences Institute, The Ohio State University)
Quantitative modeling of transcription initiation by bacterial RNA polymerase

Kim-Anh Do (Department of Biostatistics, U. T. M. D. Anderson Cancer Center, Houston)
Bayesian Mixture Models for Phage Display Experiments: Translation from Mice to Humans

Samuel Drulhe (Helix, Institut National de Recherche en Informatique et en Automatique, Grenoble, France)
Identification Procedure for Piecewise Affine Models of Genetic Regulatory Networks

Xiuxia Du (Fundamental Science Division, Pacific Northwest National Laboratory)
A Strategy to Analyze Temporal Bottom-up Proteomics Data

Daniel Edsgard (Center for Biological Sequence Analysis, Technical University of Denmark)
Linking Phenome, Genome and Toxicological Space

Avigdor Eldar (Division of Biology and Department of Applied Physics, California Institute of Technology, Pasadena, Ca)
Noise-dependent developmental plasticity and the evolution of novel morphologies in B. subtilis

Fred Elisma (Ottawa Institute of System Biology, Department of Biochemistry, Microbiology and Immunology, University of Ottawa, Ottawa)
Interaction Graph Validator a New Type of Relation Database for Protein-Protein Interaction Mapping by Mass Spectrometry-Based

Hunter L Elliott (Department of Cell Biology, Scripps Research Institute, La Jolla)
Pathway reconstruction via analysis of constitutive fluctuations in molecular activities

Thanura R Elvitigala (Department of Electrical and Systems Engineering, Washington University, St.Louis, MO 63130)
Computational Analysis of the Redox Stress Response in Organisms

Frank Emmert-Streib (Department of Biostatistics, Department of Genome Sciences, University of Washington, Seattle)
Annotating Genes with Unknown Function by a Systems Approach

Abraham (Avi) Ericsson (Cell and molecular biology, Göteborgs University, Göteborg, Sweden)
Modeling PDC1 and PDC5 expression as a function of thiamine availability in yeast S. cerevisiae

Dirk Fey (Industrial Control Centre, University of Strathclyde, Glasgow, Scotland, UK)
Parameter estimation in regulatory networks of biochemical reactions

Charless C. Fowlkes (Department of Electrical Engineering and Computer Science, University of California, Berkeley)
Building a Quantitative Spatio-temporal Atlas of Gene Expression in the Drosophila Blastoderm

Akira Funahashi (Department of Biosciences and Informatics, Keio University)
CellDesigner 4.0beta: A Modeling Tool for Biochemical Networks

Kate E. Galloway (Department of Chemical Engineering, California Institute of Technology)
RNA-based control systems and their application to a model MAPK pathway

Shouguo Gao (Max McGee National Research Center for Juvenile Diabetes & Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee)
Discovery of Phenotype Related Modules by Incorporating Expression Data to Protein Interaction Networks

Juntao Gao (Stowers Institute for Medical Research, Kansas City 64110, MO)
Modular Organization and Dynamics of the Budding Yeast Polarity Protein Network

Geert Geeven (Department of Mathematics, VU University, Amsterdam, the Netherlands)
Transcriptional regulatory networks in neuronal regeneration

C.-M. Ghim (Biosciences and Biotechnology Division, Lawrence Livermore National Laboratory)
Structural and Functional Characterization of Combined Regulatory Network Motifs

Samik Ghosh (Deprtment of Computer Sc. & Engineering, The University of Arlington)
Connecting the dots: An integrated database for studying cellular dynamics

Erwin P. Gianchandani (Department of Biomedical Engineering, University of Virginia, Charlottesville)
Integrated, Dynamic Flux Balance Analysis of a Representative Module in Saccharomyces cerevisiae

Erwin P. Gianchandani (Department of Biomedical Engineering, University of Virginia, Charlottesville)
Analysis of Large-Scale Signaling Networks in Therapeutics

Martin Golebiewski (EML Research, Heidelberg, Germany)
Biochemical Data Integration: Standardization of Parameter Units and Normalization of Chemical Compound Names in SABIO-RK

Yunchen Gong (Banting & Best Department of Medical Research, University of Toronto)
Network reachability does not guarantee dynamic perturbation due to multiple positive feedbacks

Yunchen Gong (Banting & Best Department of Medical Research (BBDMR), Donnelly Center for Cellular & Biomolecular Research (CCBR), University of Toronto)
Global robustness and identifiability of random, scale-free and small-world networks

Jeff Gore (Department of Physics, Massachusetts Institute of Technology, MA, USA)
Cooperation in Yeast Sucrose Metabolism

I Goryanin (School of Informatics, university of Edinburgh)
The Edinburgh human metabolic network reconstruction

Rudiyanto Gunawan (Department of Chemical and Biomolecular Engineering, National University of Singapore)
In Silico Robustness Analysis of Cellular Systems: A Molecular Perturbation Approach

Stephen J. Hagen (Physics Department, University of Florida)
Noise in the Quorum Sensing Genetic Network of Vibrio fischeri

Adam Halasz (GRASP Lab, University of Pennsylvania)
Quantitative Model of Stringent Response in E.coli Explains Spontaneous Persister Generation

Sangjo Han (1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea)
Cellular machine-based Bayesian factor analysis: Exploring drug’s mode-of-action in a cell

Adam R. Hardy (Physiomics plc, Oxford, UK)
Modelling DNA Damage-Induced Apoptosis

Eric L. Haseltine (Division of Chemistry & Chemical Engineering, California Institute of Technology)
Implications of Rewiring Bacterial Quorum Sensing

Yuriy V. Kondrakhin (Institute of Systems Biology, Novosibirsk, Russia; Design Technological Institute of Digital Techniques SB RAS, Novosibirsk, Russia)
Meta-analysis of breast cancer microarray data: Reliable identification of up- and down-regulated genes

Pawel Krupinski (Institute for Genomics and Bioinformatics: Bren School of information and Computer Sciences, University of California, Irvine, CA 92607, USA)
Finite Element Modeling of mechanical properties of plant cells in Arabidopsis thaliana

Andrzej Kudlicki (Dept. of Biochemistry, UT Southestern Medical Center, Dallas)
High Resolution Timing with Model Based Deconvolution of Timecourse Microarray Data with Maximum Entropy Prior

Anne Kuemmel (Institute of Molecular Systems Biology, ETH Zurich, Zurich)
Elucidating compartmentalized flux direction patterns in yeast

Camille Laibe (Computational Neurobiology, European Bioinformatics Institute, Cambridge, UK)
MIRIAM Resources: Robust Cross-References in Systems Biology

Sotiria Lampoudi (Dept of Computer Science, University of California, Santa Barbara)
How does reactant size affect the propensity functions of the SSA?

Arthur D. Lander (University of California, Irvine)
Feedback control of size, cellular composition, and regeneration speed in neural epithelia: experimental and computational analysis

Roberto Larcher (The Microsoft Research, University of Trento Centre for Computational Systems Biology)
BetaWB—A language for modular representation of biological SYSTEMS

Reinhard Laubenbacher (Virginia Bioinformatics Institute/Department of Mathematics, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061)
The effect of negative feedback loops on the dynamics of Boolean networks

Mario Lauria (TIGEM - Napoli, Italy)
Simultaneous gene network and mode of action inference with mNIr

Nicolas Le Novere (EBI, EMBL)
Semantic annotation of kinetic models in Systems Biology

Paola Lecca (The Microsoft Research - University of Trento Centre for Computational and Systems Biology (Italy))
A new method for inferring rate coefficients from experimental time-consecutive measurements of reactant concentrations

Chih Lee (Institute of Statistical Science, Academia Sinica)
Inferring Genetic Networks via Nonlinear Models and Optimization Alogrithms

Bonghee Lee (Institute for Systems Medicine, Gachon University Gil Medical Center, Incheon, Korea)
Systemic analysis of genome-wide transcriptional changes associated with olig2-induced differentiation of human neural stem cells

Erel Levine (Center for Theoretical Biological Physics, University of California, San Diego)
Small Regulatory RNAs May Sharpen Spatial Expression Patterns

Cheng-Wei Li (Lab. of Systems biology, National Tsing Hua University)
Spatio-Temporal Dynamic Model in Drosophila Early Development via Protein Data and Microarray Data

Chen Li (European Bioinformatics Institute, Hinxton, CB10 1SD, UK)
BioModels Database, a curated and annotated resource of published quantitative kinetic models

Lu Li (Computational Neurobiology, European Bioinformatics Institute, Cambridge, UK)
Computational Modelling of Dopamine and Glutamate Signal Integration and ERK-mediated neuroadaptation

Nicole yee-key Li (Department of Communication Science and Disorders, University of Pittsburgh)
A Patient-Specific in silico Model of Inflammation and Healing Tested in Acute Vocal Fold Injury

Shuwang Li (Math Department, University of California, Irvine)
Surface phase separation and morphological transition of a multicomponent vesicle

Willem P. A. Ligtenberg (Department of BioMedical Engineering, Eindhoven University of Technology, Eindhoven)
ReConn: Explore past the edges of pathways

Gabriele Lillacci (Department of Mechanical Engineering, University of California, Santa Barbara)
Dynamic modeling of DNA damage and repair processes

Rainer Machne (Institute for Theoretical Chemistry, University of Vienna, Austria)
The evolution of the bifurcation phenotype: Phylogenetic and dynamical analysis of fungal GATA networks

Cameron MacKay (Safety and Environmental Assurance Centre, Unilever, UK)
An in silico approach to aid in assessing the risk of chemical-induced skin sensitization

Yusuke T. Maeda (Department of Physics, the University of Tokyo)
Self-organized coordination between morphological dynamics and cell movement in single Dictyostelium discoideum cells

Steven Maere (Department of Plant Systems Biology, VIB, Ghent (Belgium))
Combinatorial Analysis of Perturbational Gene Expression Compendia

Alexander Y. Mitrophanov (Howard Hughes Medical Institute, Department of Molecular Microbiology, Washington University School of Medicine)
Dynamical properties of connector-mediated pathways in two-component signal transduction

Eric D. Mjolsness (University of California, Irvine CA 92607, USA)
1D modeling of auxin distribution in plant roots

Dominik Mojzita (Cell and molecular biology, Göteborgs University, Göteborg, Sweden)
Thiamine uptake in yeast Saccharomyces cerevisiae—A modelling aproach

Michael Monine (Theoretical Biology and Biophysics, Center for Nonlinear Studies, LANL, Los Alamos, NM)
Simulation of systems marked by combinatorial complexity

Stuart L. Moodie (University of Edinburgh)
The Edinburgh Pathway Editor—a graphical editor for biological pathways

Travis I Moore (Department of Developmental and Cell Biology, University of California, Irvine)
Dynamic Polarized Response of Yeast to Microfluidically Generated Alpha-Factor Gradients

Ion I. Moraru (Center for Cell Analysis and Modeling, University of Connecticut Health Center)
Modeling Complex Networks: Integrating Rules (BioNetGen) and Data Mining (BioPAX Ontology) into the Virtual Cell Framework

Pablo Moreno (Bioinformatics and Mathematics of Genome Laboratory, Centre for Mathematical Modeling, University of Chile, Chile)
Gene regulation of metabolic pathways: A continuous model for Escherichia coli carbon sources uptake

Hirotada Mori (Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0101 Japan)
Towards modeling and simulation of Glycolysis and TCA cycle

Masaki S. Morioka (Dept. of Computational Biology, School of Biomedical Science, Tokyo Medical and Dental University, Tokyo, Japan)
Temporal gene expression analysis of hypoxia in human muscle cell

Hisao Moriya (Cancer Institute)
In vivo robustness analysis of cell division cycle related genes in the fission yeast S. pombe

Fangping Mu (Theoretical Biology and Biophysics Group, Theoretical Division, Los Alamos National Laboratory, Los Alamos, NM 87545, USA)
Transcription factor binding sites discovery by structural and molecular interaction field features

Shankar Mukherji (Division of Health Sciences and Technology, Massachusetts Institute of Technology and Harvard University)
Evolvability of proteins in a signaling cascade: The importance of network topology

Brian E. Munsky (Center for Control, Dynamical Systems, and Computation; University of California, Santa Barbara)
Sensitivity Analysis and Parameter Identification of Stochastic Gene Regulatory Networks Using Finite State Projection Techniques

Ettore Murabito (Doctoral Training Centre in Systems Biology, Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, 131 Princess Street, M1 7DN, Manchester, United Kingdom; School of Chemical Engineering and Analytical Science, The University of Manchester, PO Box 88, Sackville Street, M60 1QD, Manchester, United Kingdom)
Selecting among the multiple alternate optimal solutions of the Flux Balance Analysis of yeast metabolism: Use of the adaptational potential of the organism

Kevin F. Murphy (Department of Biomedical Engineering, Center for Biodynamics and Center for Advanced Biotechnology, Boston University)
Combinatorial promoter design for engineering noisy gene expression

Nagarajan (Institute for Computational and Mathematical Engineering, Stanford University, Stanford, CA)
Progression Analysis of Disease

Tarek S. Najdi (Institute for Genomics and Bioinformatics, University of California, Irvine)
Enzyme-mechanism models and simulations of central metabolism pathways and amino acid biosynthesis in Escherichia coli

Tadashi Nakano (Department of Computer Science, University of California, Irvine)
Intercellular Ca2+ Wave Propagation through Patterned HeLa Cx43 Cells

Honda Naoki (Graduate School of Information Science, Nara Institute of Science and Technology, Japan.)
Spontaneous signal generation induced by reaction noise for gradient sensing in chemotaxis

Ali Navid (Chemistry, Materials and Life Sciences Directorate, Lawrence Livermore National Laboratory)
System-level analysis of metabolism in Yersinia pseudotuberculosis and the biovars of Yersinia pestis using a genome-scale mathematical model

Gregor Neuert (Department of Physics, Massachusetts Institute of Technology, Cambridge)
An All-or-None Response in Osmolyte-Dependent Gene Expression in Saccharomyces cerevisiae

Sergey Nikolaev (Institute for Cytology and Genetics, Novosibirsk, Russia)
Modeling of the Shoot Apical Meristem Structure Regulation Based on CLV1, CLV2, CLV3 and WUS Interactions

Zoran Nikoloski (University of Potsdam, Institute for Biochemistry and Biology, Potsdam, Brandenburg, Germany)
Systematic framework for metabolic networks with constrained biological information: Analysis and applications

Masaki Nishikawa (Institute of Industrial Science (IIS), University of Tokyo)
Novel in vitro system for primary culture of hepatocytes toward the study of circadian rhythms of the liver

Yurie Okabe (Department of Computational Science and Engineering, Nagoya University, Nagoya, Japan)
Effects of the DNA state fluctuation on single-cell dynamics of self-regulating gene

Roberto Olivares (Center for Microbial Biotechnology, BioCentrum-DTU, Building 223, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark. )
Comparing protein and mRNA expression level on a genome scale: posttranscriptional regulation in yeast Saccharomyces cerevisiae

Brett G. Olivier (Department of Biochemistry, University of Stellenbosch, Stellenbosch)
Investigating cellular regulation with PySCeS/Kraken

Shuichi Onami (RIKEN GSC)
Quantitative and computational phenotype analysis of early C. elegans RNAi embryos

David W. Orendorff (University of California, Irvine)
High-accuracy R-leaping: Implementing and exploring a potentially exact method for accelerated stochastic simulation

Lars-Göran Ottosson (Department of Cell and Molecular Biology, Göteborg University, Göteborg)
Robustness analysis of HOG pathway related genes in budding yeast

Sri R. Paladugu (Keck Graduate Institute of Applied Life Sciences, Claremont)
Predicting synthetic genetic interactions in yeast through machine-learning analysis of protein interaction data

Saurabh Paliwal (Department of Biomedical Engineering, The Johns Hopkins University)
A mechanism for regulation of bistability in gene expression

Myung-June Park (Department of Chemical Engineering, Ajou Universiy, Suwon, Korea)
Mathematical modeling for hybrid gonadotrope biosynthetic response to gonadotropin-releasing hormone

Myung-June Park (Department of Chemical Engineering, Ajou Universiy, Suwon, Korea)
Mathematical modeling for hybrid gonadotrope biosynthetic response to gonadotropin-releasing hormone

John Parkinson (Hospital for Sick Children, Toronto)
The Conservation and Evolutionary Modularity of Metabolism

Kate Patterson (Department of Mathematics, Montana State University, Bozeman)
When activators repress and repressors activate: A qualitative analysis of the Shea-Ackers model

Anca Radulescu (Department of Applied Mathematics, University of Colorado at Boulder)
A systems approach to schizophrenia

Ofer Rahat (Biochemistry Department, Weizmann Inst. of Science, Rehovot, Israel )
Network Motifs Profile of Proteins Contact Map: A Novel Pattern Recognition Tool for Fold Prediction

Arjun Raj (MIT)
Noise in Gene Expression: Behavior and Consequences

Karthik Raman (Indian Institute of Science, Bangalore)
Impact of drug action in TB: A study using protein–protein influence networks and flux balance analysis

Ranjit Randhawa (Department Of Computer Science, Virginia Tech, Blacksburg)
Aggregation in Macromolecular Regulatory Network Models

Marija Rasajski (Department of Computer Science, University of California, Irvine)
Fitting a Geometric Graph to a Protein-Protein Interaction Network

Alexander V. Ratushny (Institute for Systems Biology, Seattle, WA)
Modeling the dynamic behavior of an oleate-responsive gene regulatory network in Saccharomyces cerevisiae

Shubhra S. Ray (Center for Soft Computing Research, Indian Statistical Institute, Kolkata, India)
Predicting Gene Function in Yeast through Adaptive Weighting of Multi-Source Information

Özgür Sahin (Division of Molecular Genome Analysis, German Cancer Research Center, Heidelberg)
Modeling of ErbB receptor regulated G1/S transition using combinatorial RNAi

Sven Sahle (Department for Modeling of biological Processes, University of Heidelberg, Germany)
COPASI—A complex pathway simulator

Patrik Sahlin (Department of Theoretical Physics, Lund University)
A pattern generating model inspired by plant phyllotaxis: Analysis of requirements and capabilities

M. Selman Sakar (Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia)
Microfabricated Structures Powered by Flagellated Bacteria

Armindo Salvador (Center for Neuroscience and Cell Biology – University of Coimbra, Coimbra, Portugal)
Gene expression profiles in Saccharomyces cerevisiae strongly reflect energetic costs of gene products

Lukasz Salwinski (UCLA-DOE Institute for Genomics and Proteomics, Los Angeles)
Tapping the Web for interaction data: MiTap & MiSink extensions to Firefox and Cytoscape

Silvia Santos (EMBL, Cell Biology and Biophysics, Heidelberg, Germany)
MAPK network properties determining cell fate decision in PC-12 cells

Herbert M. Sauro (University of Washington, Seattle)
In Silico Evolution of Reaction Networks

James C. Schaff (Center for Cell Analysis and Modeling, University of Connecticut Health Center)
VCell: An Open Framework for Computational Cell Biology

Gabriele Scheler (Department of Computer Science, Stanford University)
Network Topology and Pattern Storage: Applications to Hippocampal CA3 Synaptic Connectivity

Jan Schellenberger (Department of Bioinformatics, University of California, San Diego)
Exploring the Concentration Space of Genome Scale Metabolic Networks

Torgom Ye. Seferyan (Department of Biophysics, Yerevan State University, Yerevan, Armenia)
Influence of Post Electro-Induced Free Radicals on Chemiluminescence of Liposomes

Jun Seita (Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine)
Network Analysis between Hematopoietic Stem Cells and Multipotent Progenitor Cells

Kandarp Shah (Department of Developmental and Cell Biology, University of California, Irvine)
Docking and scaffolding contribute differently to regulation of two overlapping yeast MAPK pathways

Bruce E. Shapiro (Biological Network Modeling Center, Caltech, Pasadena, CA USA)
Platforms for Modeling in Systems Biology: Recent Developments in MathSBML and Cellerator

Ruslan N. Sharipov (Institute of Cytology and Genetics SB RAS, Novosibirsk, Russia; Institute of Systems Biology, Novosibirsk, Russia; Design Technological Institute of Digital Techniques SB RAS, Novosibirsk, Russia)
Integrated approach for modeling physiological, biomechanical, and molecular-genetic aspects of human cardiovascular system in health and essential hypertension

Brendan Sheehan (Systems Research Group, School of Computer Science and Informatics, University College Dublin, Ireland)
CellTransformer: A Tool to Generate Reaction Networks through Graph Transformation

Koichi Takahashi (The Molecular Sciences Institute)
Towards computational systems biology

Makio Tamura (Biology, Atmosphere, Chemistry, and Earth Division, Lawrence Livermore National Laboratory)
Comparative Genome Content Analysis with Respect to Basic Microbial Phenotypes by Class Association Rule Mining

Kai Tan (Department of Bioengineering, University of California, San Diego)
A systems approach to delineate functions of paralogous transcription factors: Role of the Yap family in DNA damage response

Hiromasa Tanaka (Department of Developmental and Cell Biology, University of California, Irvine, Center for Complex Biological Systems, University of California, Irvine)
Role of Regulation of the RGS protein Sst2p on Polarization and Mating in Yeast

Bogdan Tanasa (The Kellogg School of Science and Technology, The Scripps Research Institute, La Jolla, CA 92037)
Systems biology analyses of molecular networks in human tissues and misfolding diseases

Paul L.F. Tang (Department of Biochemistry, University of Hong Kong)
Genetic Modifier(s) of Embryonic Lethality in Type IIA Procollagen Deficient Mice

Ines Thiele (Bioengineering Department, University of California, San Diego)
Genome-Scale reconstruction of the transcriptional and translational machinery in Escherichia coli: A knowledge-database and its mathematical formulation

Jason D. Thompson (Department of Physics and Astronomy, University of British Columbia, Vancouver, Canada)
The Use of Forced Oscillations to Study Biochemical Interactions

Jens Timmer (Institute of Physics, University of Freiburg, Freiburg, Germany)
Identifiability analysis for systematic parameter reduction and module identification in large signaling networks

Tsz-Leung To (Department of Chemical Engineering, Massachusetts Institute of Technology)
Quantitative characterization of synthetic gene regulatory network libraries

Jared E. Toettcher (Department of Biological Engineering, Massachusetts Institute of Technology)
Investigating the Systems Properties of the Mammalian DNA-Damage Response

Tony Y. Tsai (Department of Biomathematics, University of California, Los Angeles)
Single-cell zeroth-order protein degradation enhances the robustness of synthetic oscillator

Ka-Po Tse (Institute of Microbiology and Immunology, National Yang-Ming University, Taipei, Taiwan)
MCP-1 Promoter Polymorphism at -2518 is Associated with Metastasis of Nasopharyngeal Carcinoma after Treatment

Lam C. Tsoi (Department of Biostatistics, Bioinformatics and Epidemiology, Medical University of South Carolina)
Identification of genes with common differential expression pattern across different metastatic microarray data

Yoshihiro Usuda (Life Science Institute, Ajinomoto Co., Inc.)
Dynamic modeling of central metabolism and regulatory network of Escherichia coli for amino acid production simulation

Ravishankar R. Vallabhajosyula (Keck Graduate Institute of Applied Life Sciences)
Objective criteria for defining hubs in protein interaction networks

Karen van Eunen (Department of Molecular Cell Physiology, Vrije Universiteit Amsterdam, NL)
Changes in fermentative capacity during nitrogen starvation in baker’s yeast are initially regulated by multi-site modulation

Natal van Riel (Department of Biomedical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands)
Qualitative analysis of nonlinear biochemical networks

Alejandra C. Ventura (Deparment of Internal Medicine and Comprehensive Cancer Center, University of Michigan)
A different model for signaling cascades

Pablo Villoslada (University of Navarra, Spain)
Therapeutic target identification and validation using gene expression networks for autoimmune diseases

LaChelle Waller (Department of Genetics Bioinformatics and Computational Biology, Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University)
Transcriptional profiling of potential regulatory factors modulating defense mechanisms in soybean under P. sojae infection

Christian Waltermann (Computational Systems Biology Group, Max Planck Institute for Molecular Genetics, Berlin, Germany)
Mathematical modeling of the cAMP/PKA pathway in S. cerevisiae

Kai Wang (Department of Biomedical Informatics, Columbia University, New York, NY, USA)
Signalome-Transfactome Networks in Human B Cells

Liming Wang (Department of Mathematics, Rutgers University, New Brunswick)
On the number of steady states in a multisite phosphorylation-dephosphorylation cycle

Wenxue Wang (Department of Mathematics and Statistics, Texas Tech University)
Identification and Modeling of Co-Rhythmic Genes from Micro-array Time Series Data

Barry L. Wanner (1Purdue University, Biological Sciences, West Lafayette, IN 47907 USA)
EcoliHub Information Resource for Experimentation and Modeling

Karen H. Watanabe (Department of Environmental & Biomolecular Systems, Oregon Health & Science University)
A Computational Model of Male Fathead Minnow Reproductive System Regulation: Linking changes in gene expression with reproductive effects

Katja Wegner (Biological and Neural Computation Group , Science & Technology Research Institute , University of Hertfordshire, Hatfield)
NetBuilder—A tool for the modeling and simulation of genetic regulatory networks

Michael C. Weis (Department of Electrical Engineering and Computer Science, Case Western Reserve University)
Complex Systems Biology of Prostate Cancer

Thomas Whisenant (Developmental and Cell Biology Department, UCI)
Computationally Searching the Genome for Novel JNK Substrates

Lucia Wille (Merrimack Pharmaceuticals Inc., Cambridge, MA 02139, USA)
Understanding IGF signaling dynamics through computational modeling

Cranos Williams (North Carolina State University)
Optimal Control Formulation of Constrained Least-Squares Estimation for Biochemical Pathway Estimation

Chao-Jen Wong (Computational Science Research Center, San Diego State University)
Global Gene Expression Profiling in Neonatal Rat Myocardium in Response to the Anti-diabetic Drug Rosiglitazone

Xuebing Wu (MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST/Department of Automation, Tsinghua University, Beijing, China)
Global inference of human phenotype-genotype associations by integrating interactome, phenome and diseasome

Joao B. Xavier (FAS Center for Systems Biology, Harvard University, Cambridge)
Scale-dependent social interactions drive morphogenesis and evolution in microbial biofilms

Dan Xi (Office of Cancer Complementary and Alternative Medicine, National Cancer Institute, NIH)
Toward Systems Biology Approaches to Cancer Complementary and Alternative Medicine Research

Hao Xiong (Department of computer Science, Texas A&M University)
Genetic Networks Show Strong Differential Dynamical Properties

Momiao Xiong (Human Genetics Center, University of Texas School of Public Health )
Evolution of the Structure of Metabolic Networks

Tadashi Yamada (Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University)
Analysis of the relationship between noise in gene expression and regulatory structure in amino acid biosynthesis pathways

An Yan (Department of Botany and Plant Sciences and Center for Plant Cell Biology, Institute for Integrative Genome Biology, University of California, Riverside)
Models for oscillation of Rho GTPase Signaling

Bin Yan (NIDCD, NIH)
Systems biology-defined NF-kappaB regulons, interacting signal pathways and networks are implicated in the malignant phenotype of head and neck cancer

Laurence Yang (Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, ON M5S 3E5, Canada)
Fitness Profiles Identify Enzyme Capacities

Tau-Mu Yi (Department of Developmental and Cell Biology, UCI)
Building a Toolbox for Quantitative Image Analysis of Yeast Cells for Systems Biology Using CellProfiler

Zhizhong Yin (Department of Biomedical Engineering, Johns Hopkins University)
Combining Microfluidics and Microarray for Complex Cell Signaling Study

Guy Yosiphon (Department of Computer Science, Center for Complex Biological Systems, University of California, Irvine)
Dynamical Grammar Modeling of Cellular Proliferative Dynamics in the Olfactory Epithelium

Richard Yu (Molecular Sciences Insitute, Berkeley, CA)
Rapid feedback minimizes loss of information during signal transduction

Katsuyuki Yugi (Department of Biosciences and Informatics, Keio University, JAPAN)
Towards construction of genetic relaxation oscillators

Hongseok Yun (Department of Chemical and Biomolecular Engineering, KAIST)
EcoProDB: The protein knowledge base for Escherichia coli

Tingting Zhang (Roche Palo Alto LLC)
The IRAK Regulatory Module in IL-1 Signaling

Zhihua Zhang (Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor)
Topological Importance of Transcriptional Regulatory Network Revealed by Genetic Perturbation in Yeast

Jie Zhang (BioCentrum-DTU, Technical University of Denmark)
Glucose regulation and Snf1 protein kinase in Saccharomyces cerevisiae

Li Zhang (Computer Science Department,Donald Bren School of Information and Computer Sciences,University of California,Irvine,California,U.S.A.)
Dynamic Pathway Modeling of DNA Damage Response System and Parameter Estimation

Yanan Zheng (Entelos, Inc., Foster City, CA)
Use of biosimulation to identify novel strategies for inducing type 1 diabetes remission in the NOD mouse

Xuefeng Zhou (Department of Computer Science, Washington University, Saint Louis, USA)
Regulatory Circuits of MicroRNAs and Transcription Factors in Plant

Kai Zhuang (Department of Chemical Engineering, University of Toronto)
Race to Domination: A community competition study of Escherichia coli, Geobacter sulfurreducens, and Rhodoferax ferrireducens

Zhike Zi (Computational Systems Biology, Max Planck Institute for Molecular Genetics)
Constraint-based Modeling and Kinetic Analysis of the Smad Dependent TGF-beta Signaling Pathway

Guy E. Zinman (Department of Computational Biology, Carnegie Mellon University, Pittsburgh, USA)
Degradome project: Insights into intracellular protein degradation