JOURNAL OF SOFTWARE (JSW)
ISSN : 1796-217X
Volume : 3    Issue : 7    Date : October 2008

Analysis and Visualization of Gene Expressions and Protein Structures
Ashraf S. Hussein
Page(s): 2-11
Full Text:
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Abstract
This paper describes a web-based interactive framework for the analysis and visualization of gene
expressions and protein structures. The formulation of the proposed framework was encountered
by many challenges due to the wide range of relevant analysis and visualization techniques, in
addition to the existence of a diversity of biological data types, on which these techniques operate.
The main challenges that guided the formulation of the present framework are: (a) the integration of
data from heterogeneous resources, such as expert-driven data from text, public domain
databases and diverse large scale experimental data sets, and (b) difficulty in integrating the most
recent analysis and visualization tools due to the lack of standard I/O. Therefore, the fundamental
innovation in the proposed framework is the integration of the state-of-the-art techniques of both
analysis and visualization for gene expressions and protein structures through a unified workflow.
In addition, it supports a wide range of input data types and exports three dimensional interactive
outputs using Virtual Reality Modeling Language (VRML) to be ready for exploration via off-the-shelf
monitors as well as immersive, 3D, stereo display environments.

Index Terms
computer visualization, bioinformatics, gene expressions, protein structures