Interdisciplinary Bio Central
 
Etc. (Bioinformatics/Computational biology/Molecular modeling)

An Integrative Analysis Program for Two-dimensional Gel Electrophoresis
Dongil Chung1, Juhyun Jung1, Jaeduck Jang1, Jongchul Ye1, Jaeseung Jeong1 and Kwang H. Lee1,*
1Department of BioSystems, Korea Advanced Institute of Science and Technology (KAIST),Daejeon, Republic of Korea 305-701
*Corresponding author
  Published : August 31, 2006
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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Synopsis

Two-dimensional gel electrophoresis (2DE) is one of the most popular way to separate thousands of proteins simultaneously with quantification. To analyze the position of each gel spot containing the protein profile, i.e. protein isoelectric point (pI) and molecular weight (Mw), several computer assisted tools are suggested, including MELANIE and PDQuest. Those softwares provide various and performant methods for image processing and spot detection, but their handling is time-consuming and requires the assistance of user guide manual. In this study, we propose an automatic gel image processing program with a friendly graphic user interface based on MATLABĀ®. Our tool not only processes spots detection, including preprocessing of noise and distortion of the data, but also provides an automatic association to the corresponding reference spot of the dataset, or landmarks. The latest operation is also called the `landmark matching' process. In this paper we present an example of application of our integrative analysis program with to the data set of human leukemia. We think that this program will be able to gently assist biologist in the analysis of high-throughput proteomics.

Keyword: 2D Gel Electrophoresis, proteomics
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