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Activity Number:
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272
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Type:
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Topic Contributed
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Date/Time:
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Tuesday, July 31, 2007 : 10:30 AM to 12:20 PM
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Sponsor:
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Biometrics Section
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| Abstract - #309626 |
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Title:
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Analytical Pipeline for 2D Gels
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Author(s):
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Francoise Seillier-Moiseiwitsch*+
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Companies:
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Georgetown University Medical Center
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Address:
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Suite 180 Building D, Washington, DC, 20057,
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Keywords:
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proteomics ; wavelets ; 2D gels ; alignment ; images ; electrophoresis
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Abstract:
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Two-dimensional polyacrylamide gel electrophoresis is a technique of choice to separate and display all proteins expressed in a tissue. In the resulting protein maps for groups of patients, we seek to identify differentially-expressed proteins. We describe a comprehensive analytical approach that deals with preprocessing, alignment and differential analysis. Preprocessing removes the bulk of the background noise. It involves smoothing, selecting regions containing spots and gradient thresholding. Images are aligned using cubic-spline transformations. The alignment is formulated as a quadratic programming problem that is optimized using an interior-point method. Wavelets are utilized to summarize the aligned images, and statistical tests are performed on the wavelet coefficients. These tests take into account the experimental design and have been developed with low sample sizes in mind.
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