Preliminary Program subject to change
21010 Computational and Functional 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

Jeffrey D. Varner
Assistant Professor
Chemical and Biomolecular Engineering
Cornell University
Olin Hall
Ithaca, NY 14853
Phone Number: (607) 255 8656
Fax Number: (607) 255 9166
Email: jvarner@genencor.com

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
A Mathematical Programming Network Model for Gene Pathway Analysis
Rishi R. Gupta, University of Connecticut Storrs, 191 Auditorium Road, UNIT 3222, UTEB, Dept. of Chemical Engineering, Storrs, CT 06269 and Luke E. Achenie, University of Connecticut, Dept. of Chemical Engineering, Unit 3222, 191 Auditorium Road, Storrs, CT 06269
Non-Additive Force Fields for Ions: Charge Equilibration Models for Chloride, Sodium, and Potassium Ions
Sandeep A. Patel, Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037
A Bioinformatics Approach to the Analysis of Combinatorial Transcriptional Regulation
Sarita Nair, Praveen Chakravarthula and Rajanikanth Vadigepalli, Daniel Baugh Institute for Functional Genomics, Thomas Jefferson University, 1020 Locust Street, Room 575, Philadelphia, PA 19107
A Network Decomposition Framework for Integration of Knowledge on Regulatory Networks in Biological Systems
Yandi Dharmadi, Iowa State University, 2114 Sweeney Hall, Ames, IA 50011 and Ramon Gonzalez, Chemical Engineering, Iowa State University, Department of Chemical Engineering, 2114 Sweeney Hall, Ames, IA 50011-2230
Distance-Dependent Force Field Using a High Resolution Decoy Set
Rohit Rajgaria, Scott R. McAllister and Christodoulos A. Floudas, Chemical Engineering, Princeton University, Equad, Princeton, NJ 08544
Intermission
Determination of Metabolically Distinct Cellular Physiologies Using Metabolic Rate Screening
R. Robert Balcarcel, Chemical Engineering, Vanderbilt University, VU Station B #351604, 2301 Vanderbilt Place, Nashville, TN 37235-1604
New Approaches for Enabling Temporal Expression Profiling 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
Transcriptional Profiling of Engineered Skin: the Role of Air-Liquid Interface on Epidermal Development and Stratification
Piyush Koria, SUNY at Buffalo, 916 Furnas Hall, Amherst, NY 14260 and Stelios T. Andreadis, SUNY at Buffalo, 908 Furnas Hall, Amherst, NY 14260

Computational Molecular Science and Engineering Forum