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The Second q-bio Conference: Poster Presenters
From Q-bio
Back to The Second q-bio Conference.
Poster Session 1: Thursday, August 7
(The discrepancy between the printed booklet and the list has been removed.)
- Rhys Adams, University of Texas M. D. Anderson Cancer Center
Population survival, environmental fluctuations, and phenotypic switching (pdf) - Eric Batchelor, Harvard Medical School
Recurrent Initiation: A Mechanism for Triggering p53 Pulses in Response to DNA Damage (pdf) - Matthew R. Bennett, University of California, San Diego - Spotlight Talk
Modeling the genetic dual-feedback oscillator (pdf) - Kevin Cahill, University of New Mexico
Models of Cell-Penetrating Peptides (pdf) - Brandon Chisham, New Mexico State University
Analysis of the Effect of Beverage Consumption on Gene Expression in Blood (pdf) - Chiraj Dalal, California Institute of Technology
Stochastic Nuclear Localization Bursts Coordinately Regulate Target Genes (pdf) - Bryan Daniels, Cornell University
Sloppiness in Biochemical Modeling and Evolution (pdf) - Mary J. Dunlop, California Institute of Technology
Regulation Revealed by Correlations in Gene Expression Noise (pdf) - James R. Faeder, University of Pittsburgh School of Medicine
Rule-Based Modeling of Biochemical Systems with BioNetGen (pdf) - Ofer Feinerman, Memorial Sloan-Kettering Cancer Center - Spotlight Talk
IL-2 couples T lymphocytes in their activation: from single cell to population (pdf) - Andrew J. Gentles, Stanford University
Gene Module Regulatory Network Analysis of Follicular Lymphoma Transformation (pdf) - Daniel Georgiev, University of Washington - Spotlight Talk
Experimental Design of In Vitro DNA Reaction Networks (pdf) - Arthur C. Goldsipe, Massachusetts Institute of Technology
Using the DataRail toolbox to analyze inflammatory signals in U937 macrophages (pdf) - Thomas G. W. Graham, University of Chicago
Physicochemical Modeling of Antagonistic Transcriptional Regulation by Yan and Pnt (pdf) - Brian Harms, Merrimack Pharmaceuticals
Computational modeling and simulation lead to the development of MM-121, a human monoclonal antibody ErbB3 antagonist (pdf) - Stephen J. Helms, University of Texas Southwestern Medical Center at Dallas -Spotlight Talk
Implications of Dynamic Scaffolding for Signaling Efficiency in Drosophila Phototransduction (pdf) - Carlos M. Herrera Jr., New Mexico State University
Computing a Generalized Logical Network from Neural Codes (pdf) - Kerwyn Casey Huang, Princeton University
The Beginning of the Ends: Localization of Lipids to Bacterial Poles (pdf) - Masayo Inoue, University of Tokyo
Conditions for Chemotactic Behaviors both in Single Bacterium and in Interacting Aggregation (pdf) - Stefan Klumpp, University of California, San Diego
Growth-rate dependent effects on bacterial gene expression (pdf) - Michal Komorowski, University of Warwick
Reconstruction of transcriptional dynamics from gene reporter data (pdf) - Fangting Li, University of California, San Francisco
The 6-site phosphorylation of Sic1 causes a switch-like G1/S transition in budding yeast cell-cycle process (pdf) - Xili Liu, University of California, San Francisco
Construct a push-on-push-off switch in Escherichia coli (pdf) - Tao Long, Princeton University -Spotlight Talk
Single-cell Study of Bacterial Signaling in Quorum Sensing (pdf) - Diane Longo, University of California, San Diego -Spotlight Talk
Expression Variability from a Tet-inducible Positive Feedback Network in Mammalian Cells (pdf) - Wenzhe Ma, University of California, San Francisco
Design Principles of Perfect Adaptation in Biochemical networks (pdf) - Luca Mariani, Humboldt University
Chromatin dynamics in IL-4 stochastic expression (pdf) - Mirjam Mayer, Max Planck Institute, Dresden
Mechanics of Cellular Polarization in C. elegans (pdf) - Pankaj Mehta, Princeton University
Biological Constraints on Signal Integration in Bacteria (pdf) - Michael Monine, Los Alamos National Laboratory
Modeling multivalent ligand-receptor interactions with constraints on configurations of cell-surface receptor aggregates (pdf) - Andrew Mugler, Columbia University
Quantifying evolvability in small biological networks (pdf) - Gregor Neuert, Massachusetts Institute of Technology
Information processing in single yeast cells: from signal transduction to gene expression (pdf) - Julien F. Ollivier, McGill University
In silico evolution of allosteric protein modules (pdf) - Gerard J. Ostheimer, Massachusetts Institute of Technology
How Cells Decide Between Apoptosis and Permanent Arrest in Response to DNA Damage (pdf) - Samuel D. Palmer, New Mexico State University
Generalized Logical Networks of Metabolomic Interactions in Alfalfa and Medicago truncatula (pdf) - Krishnan Radhakrishnan, University of New Mexico
Decoupled Direct Method of Systematic Sensitivity Analysis: Application to Study of ERK1 Nuclear Translocation (pdf) - Arjun Raj, Massachusetts Institute of Technology
Stochastic gene expression and the partial penetrance of developmental phenotypes (pdf) - Shay M. Rappaport, Bar-Ilan University
Model of DNA Bending by Cooperative Binding of Proteins (pdf) - J. Christian J. Ray, Rice University
Design principles of bacterial chromosome organization (pdf) - Bin Hu, University of New Mexico
GetBonNie: online rule-based modeling tools (pdf) - Oliver Ruebenacker, University of Conneciticut Health Center
Towards unifying systems biology- using pathway data in BioPAX format for SBML simulators (pdf). See also [1]. - Carlos Salazar, German Cancer Research Center
Multisite Protein Phosphorylation as a Molecular Timing Device (pdf) - Alvaro Sanchez, Brandeis University
Connecting mechanistic models of transcriptional regulation and single-cell gene expression data (pdf) - Edda G. Schulz, Humboldt University
Two feedback loops control Th1 differentiation (pdf) - Vahid Shahrezaei, McGill University
Colored extrinsic fluctuations and stochastic gene expression (pdf) - Abhyudai Singh, University of California, Santa Barbara
Noise suppression in auto-regulatory gene networks (pdf) - Nikolai Sinitsyn, Los Alamos National Laborator
Theoretical characterization of the efficiency of molecular motors (pdf) - Michael W. Sneddon, Yale University
NFsim: Managing Complexity in Stochastic Simulations of Reaction Networks (pdf) - Soon Heng Tan, University of Toronto
Understanding signaling network evolution: A quantitative approach (pdf) - Jaclyn Tetenbaum-Novatt, Rockefeller University
Kinetic Analysis of Nucleocytoplasmic Transport (pdf) - Gandhi M. Viswanathan, University of New Mexico
Estimation of multifractal properties of random walks observed through finite probing windows (pdf) - Aleksandra M. Walczak, Princeton University - Spotlight Talk
Gene-gene cooperativity in small networks (pdf) - Yilin Wu, University of Notre Dame - Spotlight Talk
A Computational Model for Bacterial Swarming (pdf) - Yu Feng Wu, Stony Brook University
Master equation simulation analysis of immunostained Bicoid morphogen gradient (pdf) - Qiong Yang, Massachusetts Institute of Technology
Coupled oscillators and circadian gating in the cyanobacterial circadian clock (pdf) - Toru Yao, National Institute of Advanced Industrial Science and Technology
TBA (pdf) - Anton Zilman, Los Alamos National Laboratory
Mechanisms of selective transport through nano-channels: Theory vs. experiment (pdf) - Susan R. Atlas, University of New Mexico
Systems Model for Prognostic Cancer Biology (pdf), moved from Friday.
Poster Session 2: Friday, August 8
- Gary C. An, Northwestern University
TLR4 signaling and tolerance: Dynamic knowledge representation using BioNetGen (pdf) - Jorge Gil C. Angeles, New Mexico State University
Dynamic System Modeling of Gene Expression in Plant-Fungi Symbiosis (pdf) - David W. Dreisigmeyer, Los Alamos National Laboratory
Determinants of Bistability in Induction of the Escherichia coli lac Operon (pdf) - Gabor Balazsi, University of Texas M. D. Anderson Cancer Center
The causes and consequences of gene expression flexibility (pdf) - Long Cai, California Institute of Technology - Spotlight Talk
Frequency-Modulated Localization Bursts Coordinate Gene Regulation (pdf) - Yaron Caspi, Weizmann Institute of Science
A Chemical Mimic of the Nuclear Pore Complex (pdf) - Hui-Chun Cheng, University of Texas Southwestern Medical Center at Dallas
Stoichiometry Distribution of the Nephrin/Nck/WASP Signalsome (pdf) - Judith Cohn, Los Alamos National Laboratory
BIOGRAM: Identifying Similar Proteins by Functional Annotation (pdf) - Cristina-Maria Dabu, Romanian Academy
Control systems theory and neuronal modeling (pdf) - Tal Danino, University of California, San Diego
Synchronization of genetic oscillators in E. coli (pdf) - Meghan Driscoll, University of Maryland
Competing Chemical and Topographical Signals in Dictyostelium discoideum migration (pdf) - Jonathan Fitzgerald, Merrimack Pharmaceuticals
Understanding IGF signaling dynamics through computational modeling (pdf) - Pak-Wing Fok, California Institute of Technology
Guanine mediated adsorption of DNA repair enzymes (pdf) - Beata Hat, Institute of Fundamental Technological Research
Gene Copy Number in p53 Signaling Pathway (pdf) - Takahiro Harada, University of Fukui
Long-term correlation in the beat rate fluctuations of single cardiac cells (pdf) - Leonard A. Harris, University of Pittsburgh School of Medicine
Multiscale Simulation of Rule-Based Models (pdf) - Sara Hooshangi, University of Maryland
Characterization of AI-2 uptake pathway in E. coli quorum sensing circuitry (pdf) - Elizabeth D. Jones, Baylor College of Medicine
Regulation of Nuclear Receptor Mediated Transcription (pdf) - Jaewook Joo, Sandia National Laboratory
Noise-induced oscillations of NF-κB shuttling (pdf) - Ziya Kalay, University of New Mexico
An Analytic Study of Molecular Motion in Cell Membranes (pdf) - Jeff Kearns, University of California, San Diego
The Integration of Multiple Negative Feedback Regulators Directs Diverse NF-κB Signaling Dynamics (pdf) - Choel Kim, University of California, San Diego - Spotlight Talk
The First Crystal Structure of cyclic GMP-dependent protein kinase Iβ dimerization domain reveals the molecular features of an extended leucine/isoleucine zipper (pdf) - Niraj Kumar, University of New Mexico
Extinction of cellular organisms in the presence of multiple hostile and favorable environments (pdf) - Sotiria Lampoudi, University of California, Santa Barbara
Modeling raises the possibility that BvgAS phosphorelay kinase activity may be constitutive (pdf) - Tomasz Lipniacki, Institute of Fundamental Technological Research
Stochasticity and Bistability in TCR Signaling (pdf) - Zhen Liu, Virginia Polytechnic Institute and State University
A Hybrid Method Combining Improved StochSim with SSA for Solving Systems with Multistate Species (pdf) - Alexander Loewer, Harvard Medical School - Spotlight Talk
Dynamics of p53 in non-stressed conditions (pdf) - Carlos Lopez, Harvard Medical School
Understanding variability in the ErbB signaling network (pdf) - Shalini T. Low-Nam, University of New Mexico
Development of Monovalent Fluorescent Probes for Single Particle Tracking of ErbB Receptors (pdf) - Oded Maler, CNRS-Verimag
TBA (pdf) - Carlos Martinez, Stony Brook University
In Silico Evolution of Even-skipped Stripe 2 (pdf) - Osorio Meirelles, University of New Mexico
Robust Estimation of Microarrays (pdf) - Alexander Y. Mitrophanov, Washington University School of Medicine
Regulatory architectures and dynamics of bacterial gene expression (pdf) - Fangping Mu, Los Alamos National Laboratory
Prediction of enzyme-catalyzed reactions based on atomic and molecular properties of metabolites (pdf) - Ambarish Nag, Los Alamos National Laboratory - Spotlight Talk
How does a mast cell distinguish between two different extracellular stimuli that cause the same extent of receptor cross-linking? (pdf) - Dmitry Nevozhay, University of Texas M. D. Anderson Cancer Center
The effect of negative feedback strength on gene expression noise (pdf) - Torbjoern E. M. Nordling, Royal Institute of Technology
Ill-conditioning – a property of bio-networks (pdf) - Zhengyu Ouyang, New Mexico State University
Evaluation in Dynamic System Modeling of Gene Networks (pdf) - Bernardo Pando, Massachusetts Institute of Technology
Predicting bistable gene expression through input-output transfer functions (pdf) - William Pontius, Yale University - Spotlight Talk
An integrated analytic model of bacterial chemotaxis (pdf) - Krzysztof Puszynski, Silesian University of Technology
Stochastic Robustness of NF-κB signaling (pdf) - Indika Rajapakse, Fred Hutchinson Cancer Research Center
Dynamics of genetic organization: Hematopoietic system (pdf) - Daniel Reeves, Brandeis University
Physics of Formin Regulated Actin Growth (pdf) - Sushmita Roy, University of New Mexico - Spotlight Talk
Scalable learning of large networks (pdf) - Karen Sachs, Stanford University
Learning drug targets in the signaling network context (pdf) - Julio Saez-Rodriguez, Harvard Medical School
Interrogating topology of signaling networks with large-scale data within a Boolean framework (pdf) - Jakob Schluttig, University of Heidelberg
Dynamics of protein-protein encounter: a Langevin equation approach with reaction patches (pdf) - Richard P. Sear, University of Surrey
Cell signaling and virus restriction via phase separation in the cytoplasm (pdf) - Elba E. Serrano, New Mexico State University
Construction of Integrative Cross-Platform Databases for Organ Systems and Development (pdf) - Charlie E. M. Strauss, Los Alamos National Laboratory
On the origin of symmetry in biological macromolecules (pdf) - Yuichi Taniguchi, Harvard University
Single-cell Analysis of the Escherichia coli Proteome with Single-Molecule Sensitivity (pdf) - Jose Teles, Lund University
Inference and dynamical modeling of regulatory networks controlling hematopoiesis (pdf) - Erik S. Welf, University of Delaware - Spotlight Talk
Regulation of Integrin Clustering: Models and Experiments (pdf) - David Wu, California Institute of Technology
An information-theoretic approach to distributions of trajectories (pdf) - Tianyi Yang, University of Texas
Cell adhesion to motile nano ligands: Effects of ligand size and concentration in solution (pdf) - Xiaojing Yang, University of California, San Francisco - Spotlight Talk
Quantitatively monitoring the G1stability in single cell (pdf) - Lech Znamirowski, Silesian University of Technology
Replication and Self-assembly Concatenation Control in the Nanoprocesses (pdf) - Andrea Asztalos, University of Notre Dame
Protein folding topology from conformation networks (pdf)
Information for Presenters
- If your accepted poster is missing from this page, or if there is a problem with its listing, please notify the organizers by email.
- Your poster number, which you will need to locate the poster board assigned to you, is the number listed above next to your poster title. This number may change before August 1, 2008 but it will be fixed after the 1st.
- Set up your poster during the lunch break on the day of your presentation. Please use the recommended method to hang your poster (more later). Poster boards will be located in the Junior and Senior Rooms, which are adjacent to the Great Hall.
- Poster boards have a portrait orientation: 4 feet (120 cm) wide by 6 feet (180 cm) tall.
- Poster presenters are expected to be at their posters from 20:30 to 22:00 on the day of their presentation. Please be available to present your work during this time. Beverage and food service ends at 23:00; the poster session ends at midnight.
- Remove your poster before the end of the first coffee break on the day following your presentation and no earlier than midnight on the day of your presentation.
