Preliminary Program subject to change
15C00 Advances in Systems Biology: Computational Methods and Applications
OverviewDevelopments in high throughput technologies have allowed for rapid improvement of many biological species and systems including enzymes, protein complexes, cellular pathways and whole organisms. The current challenge is how to apply these technologies for enabling discoveries in many diverse areas of biochemical technology such as metabolic engineering, drug discovery, tissue engineering, and bioprocess development. This session will include contributions that describe applications of existing technologies (e.g. directed evolution, genomic and proteomic information in cellular and metabolic engineering), improvement and development of new technologies and methodologies (e.g. new combinatorial display techniques, improvements in proteome and transcriptome technologies), and computational and mathematical frameworks for the quantitative analysis of the available information (e.g. computational approaches to library construction and prescreening, systems engineering application on biological systems, computational methods for prediction of protein structure and function).
Primary SponsorBioengineering (15c)

Chair

Charles Roth
Chemical and biochemical engineering
Rutgers University
98 Brett Road
Piscataway, NJ 08854
Phone Number: 7324453047
Email: cmroth@rci.rutgers.edu

CoChair

Matthew DeLisa
Chemical Engineering
Cornell University
304 Olin Hall
Ithaca, NY 14853
Phone Number: 607-254-8560
Fax Number: 607-255-9166
Email: md255@cornell.edu
Generalization of Network Component Analysis
Linh My Tran1, Simon J. Galbraith2 and James C. Liao1, (1)Department of Chemical Engineering, UCLA, 5805 Boelter Hall, 420 Westwood Pl, Los Angeles, CA 90095, (2)Department of Computer Science, UCLA, 4732 Boelter Hall, Los Angeles, CA 90095
Mixed-Integer Reformulations of Network Component Analysis
Eric Yang, Joseph Vitolo, Charles Roth and Ioannis (Yannis) P. Androulakis, Rutgers - The State University of New Jersey, Biomedical Engineering Department, Chemical & Biochemical Engineering Department, Room 108 BME Building - 617 Browser Road, Piscataway, NJ 08854
Data Integration and Bioinformatics in the Analysis of Developing Tissues
Chris A. Bristow1, Nir Yakoby1, Rachel Kalifa1, Gertrud Schupbach2 and Stas Shvartsman1, (1)Department of Chemical Engineering and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08544, (2)Princeton University, Department of Molecular Biology, Princeton, NJ 08544
An Optimization Framework for Identifying Reaction Activation/Inhibiton or Elimination Candidates for Overproduction in Microbial Systems
Priti Pharkya, The Pennsylvania State University, 147 Fenske Laboratory, University Park, PA 16802 and Costas D. Maranas, Penn State, 112A Fenske Lab., University Park, PA 16802
Intermission
Analysis of the Thermodynamic Feasibility of a Genome Scale Metabolic Model
Matthew D. Jankowski, Christopher Henry, Linda Broadbelt and Vassily Hatzimanikatis, Chemical & Biological Engineering, Northwestern University, 2145 Sheridan Road, E136, Evanston, IL 60208-3120
A New Milp Based Approach for in Silico Reconstruction of Metabolic Networks and Its Application to Marine Cyanobacterium Prochlorococcus Marinus
Xiaoxia (Nina) Lin, Aaron Brandes, Jeremy Zucker and George M. Church, Harvard Molecular Technology Group & Lipper Center for Computational Genetics, Harvard Medical School, 77 Ave. Louis Pasteur, NRB-238, Boston, MA 02115
Sensitivity Analysis in Biological Modeling: an Application in the Model Development of Staphylococcal Enterotoxin B Pre-Apoptotic Pathways
Rudiyanto Gunawan1, Stephanie R. Taylor2 and Francis J. Doyle III1, (1)Department of Chemical Engineering, University of California Santa Barbara, Santa Barbara, CA 93106, (2)Department of Computer Science, University of California Santa Barbara, Santa Barbara, CA 93106

Food, Pharmaceutical & Bioengineering Division