2D DIGE data analysis for differential protein spot identification

Lihua Li, Lei Zhu, Bin Han, Li Chen, Rebecca Sutphen

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Differential in-gel electrophoresis (DIGE) technique has been used for differential protein analysis to improve the reproducibility of comparative 2D gel experiments. Because the sample size in 2D DIGE experiments is usually very small, the traditional statistical methods such as student t-test could not provide an accurate and reliable detection/identification of differentially expressed protein spots. This paper proposed a ranking based approach for DE protein spot identification, in which the information of comparative ranks of the protein spot volume ratio rather than their distribution were used in selection. Two methods were designed to integrate the ranking information from a set of pair-wise comparisons. The evaluation results demonstrated that the proposed methods are effective in DE protein spot identification when sample size is small.

Original languageEnglish (US)
Title of host publication2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008
PublisherIEEE Computer Society
Pages620-623
Number of pages4
ISBN (Print)9781424417483
DOIs
StatePublished - 2008
Externally publishedYes
Event2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008 - Shanghai, China
Duration: May 16 2008May 18 2008

Other

Other2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008
CountryChina
CityShanghai
Period5/16/085/18/08

Fingerprint

Electrophoresis
Gels
Proteins
Sample Size
Statistical methods
Experiments
Students

Keywords

  • Detection
  • DIGE
  • Identification
  • Protein
  • Ranking

ASJC Scopus subject areas

  • Biotechnology
  • Biomedical Engineering

Cite this

Li, L., Zhu, L., Han, B., Chen, L., & Sutphen, R. (2008). 2D DIGE data analysis for differential protein spot identification. In 2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008 (pp. 620-623). [4535031] IEEE Computer Society. https://doi.org/10.1109/ICBBE.2008.151

2D DIGE data analysis for differential protein spot identification. / Li, Lihua; Zhu, Lei; Han, Bin; Chen, Li; Sutphen, Rebecca.

2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008. IEEE Computer Society, 2008. p. 620-623 4535031.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Li, L, Zhu, L, Han, B, Chen, L & Sutphen, R 2008, 2D DIGE data analysis for differential protein spot identification. in 2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008., 4535031, IEEE Computer Society, pp. 620-623, 2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008, Shanghai, China, 5/16/08. https://doi.org/10.1109/ICBBE.2008.151
Li L, Zhu L, Han B, Chen L, Sutphen R. 2D DIGE data analysis for differential protein spot identification. In 2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008. IEEE Computer Society. 2008. p. 620-623. 4535031 https://doi.org/10.1109/ICBBE.2008.151
Li, Lihua ; Zhu, Lei ; Han, Bin ; Chen, Li ; Sutphen, Rebecca. / 2D DIGE data analysis for differential protein spot identification. 2nd International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2008. IEEE Computer Society, 2008. pp. 620-623
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