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A more recent version of this article appeared on November 1, 2003.
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Submitted on June 24, 2003
Revised on August 6, 2003
Accepted on September 7, 2003

PROTEOME-3D: An interactive bioinformatics tool for large-scale data exploration and knowledge discovery

Deborah H. Lundgren, Jimmy Eng, Michael E. Wright, and David K. Han

Center for Vascular Biology, Dept. of Physiology, University of Connecticut Health Center, Farmington, CT 06030

Corresponding Author: han{at}nso.uchc.edu

Comprehensive understanding of biological systems requires efficient and systematic assimilation of high-throughput datasets in the context of the existing knowledge base. A major limitation in the field of proteomics is the lack of an appropriate software platform that can synthesize a large number of experimental datasets in the context of the existing knowledge base. Here, we describe a software platform, termed PROTEOME-3D, that utilizes three essential features for systematic analysis of proteomics data: creation of a scalable, queryable, customized database for identified proteins from published literature; graphical tools for displaying proteome landscapes and trends from multiple large-scale experiments; and interactive data analysis that facilitates identification of crucial networks and pathways. Thus, PROTEOME-3D offers a standardized platform to analyze high-throughput experimental datasets for the identification of crucial players in co-regulated pathways and cellular processes.


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This article has been cited by other articles:


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