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Proceedings Paper

Fully automated analysis of multi-resolution four-channel micro-array genotyping data
Author(s): Mohsen Abbaspour; Rafeef Abugharbieh; Mohua Podder; Scott J. Tebbutt
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Paper Abstract

We present a fully-automated and robust microarray image analysis system for handling multi-resolution images (down to 3-micron with sizes up to 80 MBs per channel). The system is developed to provide rapid and accurate data extraction for our recently developed microarray analysis and quality control tool (SNP Chart). Currently available commercial microarray image analysis applications are inefficient, due to the considerable user interaction typically required. Four-channel DNA microarray technology is a robust and accurate tool for determining genotypes of multiple genetic markers in individuals. It plays an important role in the state of the art trend where traditional medical treatments are to be replaced by personalized genetic medicine, i.e. individualized therapy based on the patient's genetic heritage. However, fast, robust, and precise image processing tools are required for the prospective practical use of microarray-based genetic testing for predicting disease susceptibilities and drug effects in clinical practice, which require a turn-around timeline compatible with clinical decision-making. In this paper we have developed a fully-automated image analysis platform for the rapid investigation of hundreds of genetic variations across multiple genes. Validation tests indicate very high accuracy levels for genotyping results. Our method achieves a significant reduction in analysis time, from several hours to just a few minutes, and is completely automated requiring no manual interaction or guidance.

Paper Details

Date Published: 15 March 2006
PDF: 8 pages
Proc. SPIE 6144, Medical Imaging 2006: Image Processing, 61443M (15 March 2006); doi: 10.1117/12.650814
Show Author Affiliations
Mohsen Abbaspour, Univ. of British Columbia (Canada)
Rafeef Abugharbieh, Univ. of British Columbia (Canada)
Mohua Podder, Univ. of British Columbia (Canada)
Scott J. Tebbutt, St. Paul's Hospital, Univ. of British Columbia (Canada)

Published in SPIE Proceedings Vol. 6144:
Medical Imaging 2006: Image Processing
Joseph M. Reinhardt; Josien P. W. Pluim, Editor(s)

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