Preprocessing of two-dimensional gel electrophoresis images.
Proteomics produces a huge amount of two-dimensional gel electrophoresis images. Their analysis can yield a lot of information concerning proteins responsible for different diseases or new unidentified proteins. However, an automatic analysis of such images requires an efficient tool for reducing noise in images. This allows proper detection of the spots' borders, which is important in protein quantification (as the spots' areas are used to determine the amounts of protein present in an analyzed mixture). Also in the feature-based matching methods the detected features (spots) can be described by additional attributes, such as area or shape. In our study, a comparison of different methods of noise reduction is performed in order to find out a method best suited for reducing noise in gel images. Among the compared methods there are the classical methods of linear filtering, e.g., the mean and Gaussian filtering, the nonlinear method, i.e., median filtering, and also the methods better suited for processing of nonstationary signals, such as spatially adaptive linear filtering and filtering in the wavelet domain. The best results are obtained by filtering of gel images in the wavelet domain, using the BayesThresh method of threshold value determination.
Institute of Chemistry, Silesian University, Katowice, Poland.
Krzysztof
K
Kaczmarek
Beata
B
Walczak
Sijmen
S
de Jong
Bernard G M
BG
Vandeginste
D015180:Electrophoresis, Gel, Two-Dimensional / Q000295:instrumentation / Q000379:methods; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D008433:Mathematics; D011506:Proteins / Q000032:analysis; D040901:Proteomics / Q000379:methods*
D011506:Proteins