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Bioinformatics Advance Access published online on February 12, 2004
Bioinformatics, doi:10.1093/bioinformatics/bth099
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received August 22, 2003
Revised December 22, 2003
Accepted January 5, 2004

Article

Analysis of disturbed images

Gerhard Kauer 1* Helmut Blöcker 1

1 Department of Genome Analysis, GBF - German Research Centre for Biotechnology, Mascheroder Weg 1, D-38124 Braunschweig, Germany

* To whom correspondence should be addressed. E-mail: gka{at}gbf.de.


  Abstract

Motivation: Images in cellular and molecular biology (from microscopy, blots, biochips etc.) are often disturbed so that the detection and analysis of the respective relevant geometrical objects may be difficult or error-prone. The disturbances are either caused by the detector, usually a CCD camera, or by the setup of the experiment (Gerlach, 1979; Romeis, 1968). Furthermore, micro technology experiments often require simultaneous multiple-colour stainings. Therefore, the image analysis of such experiments should be colour-sensitive and colour-shadings should not only be detectable but also quantifiable.

Results: Here we describe a general solution as applied to the analysis of blots and DNA chips as well as to microscopy images of tissues. We decided to use (i) a stochastic filter after Wiener for image segmentation as starting point for object detection, (ii) chaincodes after Freeman for object description, (iii) a novel "rolling disc algorithm" to spot the objects to be analyzed and (iv) an HSI instead of an RGB colour model for colour analysis. With this combination we succeeded in performing shape detection and colour-based analysis of disturbed images.

Availability: The corresponding modules (C++) are available on request.


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[Abstract] [Full Text] [PDF]


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