Preliminary Program subject to change
TA004 Advances in Proteomic Analysis: Focus on Bioinformatics
OverviewProteomics technologies generate dauntingly large amounts of heterogeneous data types, and thus, are highly dependent on, and integrated with, informatics.  This session will cover a broad range of topics in Bioinformatics related to Proteomics.  Laboratory information management systems (LIMS), image analysis systems and databases are needed for generation and maintenance of proteomics data.  Data and image storage systems are needed in addition to "encyclopedia" type systems that catalog results.  Fundamental questions regarding formats for data exchange and storage as well as architectures for archiving public proteomics data are still being formulated.  Simple aggregation of proteomics data as well as the more challenging integration of datasets both within proteomics and between proteomics and other disciplines (genomics, metabolomics) are still in their infancy.  A broad range of specialized tools are needed for analysis of proteomics data, including statistical analysis and pathway mapping. Finally to fully exploit the data to advance our knowledge and understanding of biology we need new intelligent systems to aid data interpretation and hypothesis generation.  As the proteomics and bioinformatics communities focus their efforts on develping the necessary computational and informatics infrastructure,  a rapidly growing open source effort has arisen to more effectively address the need for standards and new computational tools.
Primary SponsorTopical A - American Electrophoresis Society Annual Meeting (TA)

Chair

Ruth Vanbogelen
Pfizer Inc.


Email: Ruth.Vanbogelen@pfizer.com

CoChair

Philip Andrews
Professor
Department of Biological Chemistry
University of Michigan
300 North Ingalls Building
Ann Arbor, MI 48109
Phone Number: 734-763-3130
Email: andrewsp@umich.edu
Plenary: High Throughput Proteomics Informatics Challenges
Gordon A. Anderson1, Ken J. Auberry1, Gary R. Kiebel2, Mathew E. Monroe3, Elena S. Peterson2, Eric F. Strittmatter3 and Nikola Tolic1, (1)Environmental and Molecular Sciences Laboratory, Pacific Northwest National Laboratory, P.O. Box 999, Richland, WA 99352, (2)Computational & Informational Sciences Directorate, Pacific Northwest National Laboratory, P.O. Box 999, Richland, WA 99352, (3)Biological Sciences, Pacific Northwest National Laboratory, P.O. Box 999, Richland, WA 99352
Agml Central: a Proteomic Infrastructure for the Representation, Storage and Analysis of 2-D Gel Electrophoresis Data
Romesh Stanislaus1, C Chen2, John Arthur3 and Jonas S. Almeida2, (1)Biostatistics, Bioinformatics and Epidemiology, Medical University of South Carolina, 135 Cannon St, Suite 303, Charleston, SC 29403, (2)Biostatistics, Bioinformatics& Epidemiology, Medical University of South Carolina, 135 Cannon St, Suite 303, Charleston, SC 29403, (3)Dept of Medicine, Medical University of South Carolina, 171 Ashley Ave., Charleston, SC 29403
Bioinformatics and Proteomics Approaches Towards Defining the Proteome of Chloroplast Envelope Membranes
Andreas P.M. Weber1, Susanne Hoffmann-Benning2 and Andrea Bräutigam1, (1)Department of Plant Biology, Michigan State University, S-336 Plant Biology Labs, East Lansing, MI 48824-1312, (2)Department of Biochemistry and Molecular Biology, Michigan State University, Wilson Road, East Lansing, MI 48824-1312
The Microbial Proteome Project: a Database of Microbial Protein Expression in the Context of Genome Analysis
Carol S. Giometti1, Sandra Tollaksen2, Tripti Khare2, Angela Ahrendt2, Carl Lindberg2, John Yates III3 and Gyorgy Babnigg2, (1)Biosciences Division, Argonne National Laboratory, 9700 South Cass Avenue, Building 202, Room B117, Argonne, IL 60439, (2)Biosciences Division, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL 60439, (3)The Scripps Research Institute, La Jolla, CA
Plenary: the Human Protein Interaction Network
Joel S. Bader, Biomedical Engineering, Johns Hopkins University, 201C Clark Hall, 3400 N. Charles St., Baltimore, MD 21218
From Experimental Data to Mechanistic Hypotheses: Analysis of Proteomic Data Using a Very Large-Scale Causal Model
Dexter R. Pratt, Genstruct, Inc., One Alewife Center, Cambridge, MA 02140
Knowledge-Based Computational Pathways Analysis for Integrative Drug Discovery
Ramon M. Felciano, Ingenuity Systems, Inc., 1565 Charleston Road, Mountain View, CA 94043
Accelerated Evolution of Genes and Neocortical Expansion in Mammalian Lineages
Lawrence I. Grossman1, Derek E. Wildman2, Juan C. Opazo2 and Morris Goodman3, (1)Molecular Medicine and Genetics, Wayne State University, School of Medicine, 259 Mack Ave., Detroit, MI 48201, (2)Molecular Medicine & Genetics, Wayne State University, School of Medicine, 259 Mack Ave., Detroit, MI 48201, (3)Anatomy & Cell Biology and Molecular Medicine and Genetics, Wayne State University, School of Medicine, 540 E Canfield Ave, Detroit, MI 48201-1908

Topical A - American Electrophoresis Society Annual Meeting