Paper Info
Title
New approach for segmentation and quantification of two-dimensional gel electrophoresis images
Abstract
Motivation: Detection of protein spots in two-dimensional gel electrophoresis images (2-DE) is a very complex task and current approaches addressing this problem still suffer from significant shortcomings. When quantifying a spot, most of the current software applications include a lot of background due to poor segmentation. Other software applications use a fixed window for this task, resulting in omission of part of the protein spot, or including background in the quantification. The approach presented here for the segmentation and quantification of 2-DE aims to minimize these problems. Results: Five sections from different gels are used to test the performance of the presented method concerning the detection of protein spots, and three gel sections are used to test the quantification of sixty protein spots. Comparisons with a state-of-the-art commercial software and an academic state-of-the-art approach are presented. It is shown that the proposed approach for segmentation and quantification of 2-DE images can compete with the available commercial and academic software packages. Availability: A command-line prototype may be downloaded, for non-commercial use, from http://w3.ualg.pt/~aanjos/prototypes.html. Contact: antoniodosanjos@gmail.com Supplementary information:Supplementary data are available at Bioinformtaics online.
Year
DOI
Venue
2011
10.1093/bioinformatics/btq666
Bioinformatics
Field
DocType
Volume
Data mining,Two-dimensional gel electrophoresis,Segmentation,Computer science,Commercial software,Software,Bioinformatics
Journal
27
Issue
ISSN
Citations 
3
1367-4803
10
PageRank 
References 
Authors
1.00
8
5
Name
Order
Citations
PageRank
António dos Anjos1203.98
Anders L. B. Møller2101.00
Bjarne Ersbøll345038.06
Christine Finnie4101.00
Hamid R. Shahbazkia5132.09