Geometric Alignment of 2D Gel Electrophoresis Images

S. Wörz; M.-L. Winz; K. Rohr

doi:10.3414/ME9229

Methods of Information in Medicine, Table of Contents

Methods Inf Med 2009; 48(04): 320-323
DOI: 10.3414/ME9229

Original Articles

Schattauer GmbH

Geometric Alignment of 2D Gel Electrophoresis Images

S. Wörz

¹University of Heidelberg, BIOQUANT, IPMB, and DKFZ Heidelberg, Department of Bioinformatics and Functional Genomics, Biomedical Computer Vision Group, Heidelberg, Germany

,

M.-L. Winz

¹University of Heidelberg, BIOQUANT, IPMB, and DKFZ Heidelberg, Department of Bioinformatics and Functional Genomics, Biomedical Computer Vision Group, Heidelberg, Germany

,

K. Rohr

¹University of Heidelberg, BIOQUANT, IPMB, and DKFZ Heidelberg, Department of Bioinformatics and Functional Genomics, Biomedical Computer Vision Group, Heidelberg, Germany

› Author Affiliations

Abstract

Summary

Objectives: 2D gel electrophoresis (2-DE) is the method of choice for analyzing protein expression in the field of proteomics, for example, comparing a reference with a test population. However, due to complex physical and chemical processes the locations of proteins generally vary in different 2-DE images. To cope with these variations, accurate geometric alignment of 2-DE images is important.

Methods: We introduce a new elastic registration approach for 2-DE images, which is based on an analytic solution of the Navier equation using Gaussian elastic body splines (GEBS). With this approach cross-effects in elastic deformations can be handled, which is important for the registration of 2-DE images. In addition, landmark correspondences can be included to aid the registration in regions which are difficult to register using intensity information alone.

Results: We have successfully applied our approach to register 2-DE gel images of different levels of complexity. In each case, gel images from a reference group are compared with a test group. To analyze the performance of our approach, we have carried out a quantitative evaluation of the registration results. Moreover, we have performed an experimental comparison with a previous elastic registration scheme.

Conclusions: From the results we found that our approach is well-suited for the registration of 2-DE gel images of different levels of complexity and it turned out that the approach is superior to a previous hybrid scheme. Moreover, our approach is well-suited in a fully automatic setting and the performance can further be improved when landmark correspondences are available.

Keywords

Gel electrophoresis images - elastic registration - Gaussian elastic body splines - cross-effects - Navier equation

Full Text

References

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