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Warping two-dimensi...
Warping two-dimensional electrophoresis gel images to correct for geometric distortions of the spot pattern
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- Gustafsson, John, 1975 (författare)
- Gothenburg University,Göteborgs universitet,Institutionen för matematisk statistik,Department of Mathematical Statistics,Chalmers tekniska högskola,Chalmers University of Technology,University of Gothenburg
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Blomberg, Anders, 1956 (författare)
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- Rudemo, Mats, 1937 (författare)
- Gothenburg University,Göteborgs universitet,Institutionen för matematisk statistik,Department of Mathematical Statistics,University of Gothenburg,Chalmers tekniska högskola,Chalmers University of Technology
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(creator_code:org_t)
- External organization, 2002
- 2002
- Engelska.
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Ingår i: Electrophoresis. - : External organization. - 0173-0835 .- 1522-2683. ; 23:11, s. 1731-1744
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Abstract
Ämnesord
Stäng
- A crucial step in two-dimensional gel based protein expression analysis is to match spots in different gel images that correspond to the same protein. It still requires extensive and time-consuming manual interference, although several semiautomatic techniques exist. Geometric distortion of the protein patterns inherent to the electrophoresis procedure is one of the main causes of these difficulties. An image warping method to reduce this problem is presented. A warping is a function that deforms images by mapping between image domains. The method proceeds in two steps. Firstly, a simple physicochemical model is formulated and applied for warping of each gel image to correct for what might be one of the main causes of the distortions: current leakage across the sides during the second-dimensional electrophoresis. Secondly, the images are automatically aligned by maximizing a penalized likelihood criterion. The method is applied to a set of ten gel images showing the radioactively labeled proteome of yeast Saccharomyces cerevisiae during normal and steady-state saline growth. The improvement in matching when given the warped images instead of the original ones is exemplified by a comparison within a commercially available software.
Ämnesord
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Datorseende och robotik (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Computer Vision and Robotics (hsv//eng)
- NATURVETENSKAP -- Fysik -- Annan fysik (hsv//swe)
- NATURAL SCIENCES -- Physical Sciences -- Other Physics Topics (hsv//eng)
- NATURVETENSKAP -- Matematik -- Sannolikhetsteori och statistik (hsv//swe)
- NATURAL SCIENCES -- Mathematics -- Probability Theory and Statistics (hsv//eng)
Nyckelord
- Alignment
- Curved field lines
- Image analysis
- Proteomics
- Two-dimensional gel electrophoresis
- Two-dimensional gel electrophoresis
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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