Session: Poster Session (SBE's 3rd International Conference on Biomolecular Engineering)

Description:

The meeting brings together researchers using quantitative approaches to advance the understanding and application of biology at the molecular level. These approaches are contributing to the development of analytical, diagnostic, and therapeutic strategies that are directly relevant to public health. The meeting will also stimulate efforts to integrate these approaches across the molecular, cellular, and higher scales of biological complexity in a single-track Gordon-style conference format that includes hotel accommodations and most meals.

Papers:

A Modular Platform for Single-Fluorescent Protein Biosensors
Jonathan S. Marvin, Janelia Farms Research Center -- HHMI; Loren L. Looger, Janelia Farms Research Center -- HHMI

Measuring and Engineering the Bcl-2 Family Interactome Using Bacterial Surface Display
Siyan Zhang, Princeton University; A. James Link, Princeton University

Rational Engineering of Multivalent Antibody-Like Molecules for Therapeutic Use
Alexey Lugovskoy, Merrimack Pharmaceuticals Inc.; Neeraj Kohli, Merrimack Pharmaceuticals Inc.; Lihui Xu, Merrimack Pharmaceuticals Inc.; Bryan Johnson, Merrimack Pharmaceuticals Inc.; Maja Razlog, Merrimack Pharmaceuticals Inc.; Yang Jiao, Merrimack Pharmaceuticals Inc.; Kathy Zhang, Merrimack Pharmaceuticals Inc.; Bian Yu, Merrimack Pharmaceuticals Inc.; Jonathan Fitzgerald, Merrimack Pharmaceuticals Inc.

Modulation of the Phosphorylation Level of hDM2 by a Synthetic Adaptor Protein
Elissa M. Hobert, Yale University; Alanna Schepartz, Yale University

The Antisense RNA Calculator: Rational Design of Synthetic Regulatory RNAs for Controlling Protein Expression
Amin Espah Borujeni, Pennsylvania State University; Howard Salis, Pennsylvania State University

Directed Evolution of a Thermophilic Cellulase Using GFP as a Reporter
Zhiwei Chen, Joint BioEnergy Institute; Blake A. Simmons, Joint BioEnergy Institute; Kenneth L. Sale, Joint BioEnergy Institute

RBS Library Calculator: Efficient Search for Optimal Enzyme Expression Levels
Iman Farasat, Pennsylvania State University; Jason Collens, Pennsylvania State University; Howard Salis, Pennsylvania State University

Rapid Discovery and Engineering of Natural Product Biosynthetic Pathways Via Synthetic Biology
Huimin Zhao, University of Illinois at Urbana-Champaign

Exploring Gene Switches: a Mining Approach to Predict Dynamic Features of Gene Network Based on Expression Data
Ming Wu, Michigan State University; Christina Chan, Michigan State University

Elucidating the the Tailoring Pathway of An Anticancer Tetracycline
Lauren B. Pickens, University of California Los Angeles; Peng Wang, University of California Los Angeles; Woncheol Kim, University of California Los Angeles; Yi Tang, University of California Los Angeles

Exhaustive Sampling of Ribosome Binding Sites for Fast Translation
Pamela A. Barendt, University of Pennsylvania; Najaf A. Shah, University of Pennsylvania; Casim A. Sarkar, University of Pennsylvania

Molecular Mechanism by Which Palmitate Regulates Kinase Activity
Hyun Ju Cho, Michigan State University; Shayantani Mukherjee, Michigan State University; Michael Feig, Michigan State University; Christina Chan, Michigan State University

A Comprehensive Computational Model of Mycoplasma Genitalium
Jayodita Sanghvi, Stanford University; Jonathan R. Karr, Stanford University; Jared Jacobs, Stanford University; Markus W. Covert, Stanford University

Reconstructing Gene Cooperation Network of Lipotoxicity by Synergy Analysis
Xuewei Wang, Michigan State University; Aritro Nath, Michigan State University; Xuerui Yang, Michigan State University; Amanda M. Portis, Michigan State University; S.Patrick Walton, Michigan State University; Christina Chan, Michigan State University

Extending the Color Palette of In Vivo Calcium Sensing
Jasper Akerboom, Howard Hughes Medical Institute; Nicole Carreras, University of Puerto Rico; Lin Tian, Howard Hughes Medical Institute; Eric R. Schreiter, University of Puerto Rico; Loren L. Looger, Howard Hughes Medical Institute

Engineering Lipid Self-Assembly to Build Biomimetic Cell Membranes
Noah Malmstadt, University of Southern California

Specific and Covalent Cross-Linking of Proteins In Vivo Using the SortaseA Enzyme
Jason Boock, Cornell University; Eric T. Boder, University of Tennessee; Matthew P. DeLisa, Cornell University

Microbial Butanol Production-Tolerance Improvement
Payam Ghiaci, Chalmers University of Technology

Glyco-Phage Display System for N-Linked Glycoproteins
Eda Celik, Cornell University; Adam C. Fisher, Cornell University; Cassandra Guarino, Cornell University; Thomas J. Mansell, Cornell University; Matthew P. DeLisa, Cornell University

Protein Nanoparticles Encapsulating Doxorubicin as a pH-Dependent Drug Delivery System
Dongmei Ren, University of California, Irvine; Szu-Wen Wang, University of California, Irvine

Mimicking Nature to Engineer Better Biosensors
Alexis Vallee-Belisle, University of California, Santa Barbara; Francesco Ricci, University of Rome Tor Vergata; Kevin W. Plaxco, University of California, Santa Barbara

Tunable Signal Processing In Synthetic MAP Kinase Modules
Ellen C. O'Shaughnessy, Boston University; Santhosh Palani, University of Pennsylvania; James J. Collins, Howard Hughes Medical Institute, Boston University; Casim A. Sarkar, University of Pennsylvania

Enhanced Cell Uptake and Differential Trafficking Revealed by Discrete Arginine Topologies Grafted Onto a Miniature Protein
Jacob S. Appelbaum, Yale University & Yale School of Medicine; Betsy Smith, Yale University; Alanna Schepartz, Yale University

Evolving Novel E3 Ubiquitin Ligases to Target Proteins for Degradation
Sean P. O'Brien, Cornell University; Matthew P. DeLisa, Cornell University

Model of Insulin-Mediated Eukaryotic Translation Initiation Identifies Distinct Functional Sub-Modules Highlighting the Key Role of IRS1 and mTORC1
Anirikh Chakrabarti, Cornell University; Joshua Lequieu, Cornell University; Satyaprakash Nayak, Cornell University; Jeffery Varner, Cornell University

Modeling the Eukaryotic Hypoxic Response Revealed the Synergistic Role of VEGF and IL8 Signaling
Anirikh Chakrabarti, Cornell University; Joshua Paul Lequieu, Cornell University; Alvin Natanael Kumarga, Cornell University; Brian Manzi, Cornell University; Maja Stojiljkovic, Cornell University; Nicholas Bernhard Guros, Cornell University; Monroe Chen, Cornell University; Robert A Dromms, Cornell University; Jeffrey D. Varner, Cornell University

Engineering Potent Met Receptor Agonists and Antagonists Based on the NK1 Fragment of Hepatocyte Growth Factor
Ping-Chuan Tsai, Stanford University; Douglas S. Jones II, Stanford University; Jennifer R. Cochran, Stanford University

Modeling Eukaryotic Unfolded Protein Response and Its Role In Cellular Stress
Anirikh Chakrabarti, Cornell University; Aaron Chen, Cornell University; Jeffrey D. Varner, Cornell University

Affinity Maturation of Ligand-Receptor Binding through Epitope Expansion Using a Cystine Knot Scaffold
Mihalis S. Kariolis, Stanford University; Douglas S. Jones, Stanford University; Jennifer R. Cochran, Stanford University

Curating A Genome-Scale Metabolic Model of Mycoplasma Gallisepticum Using An Evolutionary Algorithm
Eddy J. Bautista, University of Connecticut; Joseph Zinski, University of Connecticut; Ranjan Srivastava, University of Connecticut

Modeling and Analysis of the Retinoic Acid Induced Proliferation and Differentiation Program of HL-60
Ryan Tasseff, Cornell University; Satyaprakash Nayak, Cornell University; Andrew Yen, Cornell University; Jeffrey D. Varner, Cornell University

Engineering Thermophillic Cellulases by Domain Shuffling
Richard A. Heins, Joint BioEnergy Institute; Vimalier Reyes-Ortiz, Joint BioEnergy Institute; Rajat Sapra, Sandia National Laboratories; Supratim Datta, Joint BioEnergy Institute; Blake Simmons, Sandia National Laboratories; Danielle Tullman-Ercek, University of California, Berkeley; Masood Hadi, Sandia National Laboratories

Improvements to Computational Protein-Protein Docking Methods Allow for the Modeling of a Wider Variety of Biologically Relevant Protein-Protein Interfaces
Monica Berrondo, Johns Hopkins University; Sidhartha Chaudhury, Johns Hopkins University; Jeffrey J. Gray, Johns Hopkins University

Intracellular Reactive Oxygen Species (ROS) Generation & Quantification Using Engineered Redox Enzymes
Sohail F. Ali, MIT; Hadley D. Sikes, Massachusetts Institute of Technology

Incorporating the Effects of pH In Protein-Protein Docking
Krishna Praneeth Kilambi, Johns Hopkins University; Jeffrey J Gray, Johns Hopkins University

Engineering Bacterial Microcompartments
Edward Y. Kim, University of California; Danielle Tullman-Ercek, University of California

Towards Engineering Ionic Liquid Tolerant Cellulases
Supratim Datta, Joint BioEnergy Institute; Ling Qin, Sandia National Laboratory; Kenneth L. Sale, Joint BioEnergy Institute; Blake Simmons, Joint BioEnergy Institute

Effects of Monoclonal Antibody Sequence on Production of a Recombinant Antibody In CHO Cells
Susan T. Sharfstein, University at Albany; Megan Mason, Rensselaer Polytechnic Institute; Bernadette Sweeney, UCB Celltech; Katharine Cain, UCB Celltech; Paul Stephens, UCB Celltech

Neurotrophin Engineering for Production In Yeast
Thomas Malott, University of Wisconsin

Design and Pre-Clinical Evaluation of Novel Multispecific Antibody-Based Constructs Targeting Epidermal Growth Factor Receptor
Jamie B. Spangler, Massachusetts Institute of Technology; Brian L. Ross, Massachusetts Institute of Technology; Benjamin E. Epstein, Massachusetts Institute of Technology; K. Dane Wittrup, Massachusetts Institute of Technology

Overexpression Vesicle-Trafficking Protein and the Impact to Heterologous Protein Production In Saccharomyces Cerevisiae
Hou Jin, Chalmers University of Technology; Keith E.J. Tyo, Chalmers University of Technology; Zihe Liu, Chalmers University of Technology; Dina Petranovic, Chalmers University of Technology; Jens Nielsen, Chalmers University of Technology

Sucrose-to-Bioproducts: Engineering a Sucrose-Based E. Coli Platform for Industrial Bioproduction
Claudia E. Vickers, The University of Queensland; Colin Archer, The University of Queensland; Michele Bruschi, The University of Queensland; Yalun Arifin, The University of Queensland; Suriana Sabri, The University of Queensland; Simon Boyes, The University of Queensland; Lars K. Nielsen, The University of Queensland

The Motifs of Kinetic Parameters That Facilitate Robust Functions of a Synthetic Gene Network
Austin W.T. Chiang, Academia Sinica; Bernhard �. Palsson, University of California, San Diego; Ming-Jing Hwang, Academia Sinica

Metabolic Modeling of Microbial Electrosynthesis for Butanol Production
Adam M. Feist, University of California - San Diego; Harish Nagarajan, University of California - San Diego; Karsten Zengler, University of California - San Diego; Bernhard Palsson, University of California - San Diego

Dissecting Cell Signalling Network Rewiring with Synthetic Antibodies
Frederic A. Fellouse, Samuel Lunenfeld Research Institute; Nicolas Bisson, Samuel Lunenfeld Research Institute; Marcin Paduch, Samuel Lunenfeld Research Institute; Shohei Koide, Samuel Lunenfeld Research Institute; Anthony Kossiakoff, Samuel Lunenfeld Research Institute; Tony Pawson, Samuel Lunenfeld Research Institute; Jeff Wrana, Samuel Lunenfeld Research Institute

Parameter Assessment for a Stochastic Cell Cycle Model
Martin A. Hjortso, Louisiana State University; William B. Ainsworth, Louisiana State University; Michael G. Benton, Louisiana State University

Construction and Analysis of Novel Domain Swapped Streptavidin Dimer
Cheng-Kuo Hsu, University at Buffalo, SUNY; Kok-Hong Lim, State University of New York at Buffalo; Sheldon Park, State University of New York at Buffalo

Disulfide Trapping of Protein Complexes on the Yeast Surface
Jasdeep Mann, State University of New York at Buffalo; Kok-Hong Lim, State University of New York at Buffalo; Cheng-Kuo Hsu, University at Buffalo, SUNY; Sri R. Madabhushi, State University of New York at Buffalo; Sriram Neelamegham, University at Buffalo - The State University of New York (SUNY); Sheldon Park, State University of New York at Buffalo

Cut and Glow: A Fluorogenic Biosensor for Proteases
Marlene Belfort, Wadsworth Center, NYS Department of Health

Engineering T-Cell Receptor Signaling Dynamics for Cell-Based Immunotherapy
Wilson W. Wong, University of California, San Francisco

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