Preliminary Program subject to change
21012 Computational Genomics
OverviewA critical component of genomics is the ex vivo computational analysis of DNA, RNA and protein sequence. In addition, computational and experimental analysis of the interaction of core biological building blocks in vivo is central to determining their role in the cell. In this session papers exploring both the experimental and theoretical aspects of computational genomics are welcome. In particular, submissions presenting experimental/theoretical advances in rapid sequence identification, mRNA transcriptional network identification, protein-protein network identification and novel large-scale techniques for the quantification of mRNA and protein concentration are particularly encouraged.
Primary SponsorComputational Molecular Science and Engineering Forum (21)

Chair

Rajanikanth Vadigepalli
Research Associate
Daniel Baugh Institute for Functional Genomics, Thomas Jefferson University
1020 Locust Street, Room 575
Philadelphia, PA 19107
Phone Number: 1-215-5032969
Fax Number: 1-215-5032636
Email: raj@mail.dbi.tju.edu

CoChair

S. Patrick Walton
Assistant Professor
Department of Chemical Engineering and Materials Science
Michigan State University
3249 Engineering Building
East Lansing, MI 48823
Phone Number: 517-432-8733
Fax Number: 517-432-1105
Email: spwalton@egr.msu.edu
DNA Sequencing by Hybridization with Errors Via Integer Programming
YoungJung Chang and Nick Sahinidis, University of Illinois, Department of Chemical and Biomolecular Engineering, 600 South Mathews Avenue, Urbana, IL 61801
Sporulation Regulons and Their Prediction in Clostridia
Carlos J. Paredes, Keith V. Alsaker and Eleftherios T. Papoutsakis, Chemical and Biological Engineering Department, Northwestern University, 2145 Sheridan Rd, Evanston, IL 60208
An Integer Optimization Framework for Selecting Informative Genes
James Wu 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
Development of a Mechanistic Model for Sugar-Utilization Regulatory Systems
Ryan Peacock1, Jiangfeng Zhu1, Jacqueline V. Shanks2, Ramon Gonzalez3 and Ka-Yiu San4, (1)Rice University, Bioengineering Department, 6100 Main Street, Houston, TX 77005, (2)Iowa State University, Chemical Engineering Dept., 3031 Sweeney Hall, Iowa State University, Ames, IA 50011, (3)Iowa State University, 1035 Sweney Hall, Ames, IA 50011, (4)Rice University, 6100 Main st, Houston, TX 77025
Intermission
Inferring Pathways That Confer a Cellular Phenotype by Integrating Gene Expression and Metabolic Profiles
Zheng Li, Department of Chemical Engineering and Material Science, Michigan State University, 2527 Engineering Building, East Lansing, MI 48824, Shireesh Srivastava, Michigan State University, 2527 Engineering Building, East Lansing, MI 48824, Xuerui Yang, Department of Chemical Engineering and Materials Science, Michigan State University, 2527 Engineering Building, East Lansing, MI 48823 and Christina Chan, Michigan State Uiversity, 2527 Engineering Building, East Lansing, MI 48824
Chemogenomic Analysis of Signaling Pathways for Reactive Nitrogen Oxide Species in Escherichia Coli
Laura R. Jarboe, Daniel Hyduke, Linh My Tran and James C. Liao, Department of Chemical Engineering, UCLA, 5805 Boelter Hall, 420 Westwood Pl, Los Angeles, CA 90095
Dynamical Analysis of an Integrated Signaling Network at a Genome-Scale
Jong Min Lee and Jason Papin, Department of Biomedical Engineering, University of Virginia, Box 800759, Health System, Charlottesville, VA 22908

Computational Molecular Science and Engineering Forum