Comparison of microarray image analysis software
Pages 77 - 81
Abstract
Microarray is very useful and vastly growing technology that helps in analyzing genetic data. Because of the advancement in this field there is lot of genetic data being produced everyday and these data are needed to be interpreted and analyzed properly to get accurate results. With the advancement in computer technologies and software, we now analyze microarray slides by computers. There are many open sources as well as commercially available software that help us to analyze microarray images. Microarray image analysis can be divided into three stages-Addressing or Gridding of spots, Segmentation and finally Background and Foreground Intensity Extraction. This paper tries to compare few of the available microarray image analysis software on the basis of the above mentioned techniques used and also on the efficiency and ease of use of these software.
References
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Yang, Y. H., Buckley, M. J., and Speed, T. P. 2001. Analysis of cDNA microarray data. Briefings in Bioinformatics. Vol 2. No 4,. pp. 341--349, December 2001.
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Daly, D. S., White, A. R., Willse, A. R., Protic, M., and Chandler, D. P. 2005. Automated Microarray image analysis toolbox for MATLAB. Bioinfromatics Applications Note. Vol 21. No 17, pp 3578--3579, 2005.
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Genomics, Image Analysis Software, 2004, URL: http://ihome.cuhk.edu.hk/~b400559/arraysoft_image.html.
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GenePix Pro 6.0 Microarray acquisition and analysis software for GenePix microarray scanners User Guid and Tutorial, 2005, Axon Instruments.
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TM4 Microarray software suit, TIGR, 2003, URL: ftp://occams.dfci.harvard.edu/pub/bio/Spotfinder/Spotfinder311doc.pdf.
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Niles Scientific 2005, URL: http://www.nilesscientific.com/overview.nhtml?overview.
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Chen, W. B., Zhang, C., and Liu, W. L. 2006. An automated gridding and segmentation method for cDNA microarray image analysis. In Proceedings of the IEEE Symposium on Computer based Medical System, 2006, pp. 893--898.
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Index Terms
- Comparison of microarray image analysis software
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Published In
March 2008
548 pages
ISBN:9781605581057
DOI:10.1145/1593105
Copyright � 2008 ACM.
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Association for Computing Machinery
New York, NY, United States
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Published: 28 March 2008
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