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Pixel‐based analysis of multiple images for the identification of changes: A novel approach applied to unravel proteome patters of 2‐D electrophoresis gel images
Author(s) -
Færgestad Ellen Mosleth,
Rye Morten,
Walczak Beata,
Gidskehaug Lars,
Wold Jens Petter,
Grove Harald,
Jia Xiaohong,
Hollung Kristin,
Indahl Ulf G.,
Westad Frank,
van den Berg Frans,
Martens Harald
Publication year - 2007
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.200601026
Subject(s) - pixel , proteome , computer science , identification (biology) , pattern recognition (psychology) , artificial intelligence , visualization , image (mathematics) , two dimensional gel electrophoresis , variation (astronomy) , data mining , proteomics , biology , bioinformatics , biochemistry , gene , botany , physics , astrophysics
A novel approach for revealing patterns of proteome variation among series of 2‐DE gel images is presented. The approach utilises image alignment to ensure that each pixel represents the same information across all gels. Gel images are normalised, and background corrected, followed by unfolding of the images to 1‐D pixel vectors and analysing pixel vectors by multivariate data modelling. Information resulting from the data analysis is refolded back to the image domain for visualisation and interpretation. The method is rapid and suitable for automatic routines applied after the gel alignment. The approach is compared with spot volume analysis to illustrate how this approach can solve persistent problems like mismatch of protein spots, erroneous missing values and failure to detect variation in overlapping proteins. The method may also detect variation in the border area of saturated proteins. The approach is given the name pixel‐based analysis of multiple images for the identification of changes (PMC). The method can be used for multiple images in general. Effects of pretreatment of the images are discussed.