« Previous
Next »
Computerized Medical Imaging and Graphics
Volume 33, Issue 1
, Pages 40-49
, January 2009
An automated method for gridding and clustering-based segmentation of cDNA microarray images
References
- . DNA arrays for analysis of gene expression. Methods in Enzymology. 1999;303:179–205
- . Quantitative motoring of gene expression patterns with a complementary DNA microarray. Science. 1995;270:467–470
- . Comparison of methods for image analysis on cDNA microarray data. Journal of Computational and Graphical Statistics. 2002;11(1):108–136
- . Microarray segmentation methods significantly influence data precision. Nucleic Acids Research. 2004;32:e50
- . Microarray biochip technology. Eaton Publishing; 2000;
- Axon Instruments. GenePix A User's Guide; 1999.
- Eisen MB. ScanAlyze. Available: http://rana.Stanford.EDU/software/; 1999.
- . Gridline: automatic grid alignment in DNA microarray scans. IEEE Transactions on Image Processing. 2004;13(1):15–25
- . Mixture model analysis of DNA microarray images. IEEE Transactions on Medical Imaging. 2005;24(7):901–909
- . Fully automatic quantification of microarray image data. Genome Research. 2002;12:325–332
- . Microarray gridding by mathematical morphology. In: Proceeding of International Symposium on Computer Graphics, Image Processing, and Vision. 2001;p. 112–119
- . Gridding and compression of microarray images. In: Proceedings of IEEE Computational Systems Bioinformatics Conference-Workshops (CSBW’05). 2004;p. 122–130
- . An automatic block and spot indexing with k-nearest neighbors graph for microarray image analysis. Bioinformatics. 2002;2:141–151
- . Automatic registration of microarray images. I. Rectangular grid. Bioinformatics. 2003;19:1824–1831
- . A deformable grid-matching approach for microarray images. IEEE Transaction on Image Processing. 2006;15(10):3178–3188
- . Automated image analysis for array hybridization experiments. Bioinformatics. 2001;17:634–641
- . Statistical issues in cDNA microarray data analysis. Functional genomics: methods and protocols. In: Brownstein MJ, Khodursky AB editor. Methods in molecular biology series. Totowa, NJ: Humana Press; 2002;
- Buhler J, Ideker T, Haynor D. Dapple: improved techniques for finding spots on DNA microarrays. UWCSE Tech Report, UWTR Department of Computer Science and Engineering, University of Washington; 2000.
- GSI Lumonics. QuantArray Analysis Software. Operator's Manual; 1999.
- . Ratio-based decisions and the quantitative analysis of cDNA microarray images. Journal of Biomedical Optics. 1997;2(4):364–374
- . Mathematical morphology applied to spot segmentation and quantification of gene microarray images. In: Proceedings of Asilomar Conference on Signals and Systems. 2002;
- . Spot user's guide. Sydney, Australia: CSIRO Mathematical and Information Sciences; 2000;
- . Quantitative quality control in microarray image processing and data acquisition. Nucleic Acids Research. 2001;29(15):e75
- . Segmentation of microarray cDNA spots using MRF-based method. In: Proceedings of the 25th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, vol. 1. 2003;p. 674–677
- . Analysis of microarray images using FCM and K-means clustering algorithm. In: Proceedings of International Conference on Signal Processing. 2003;p. 116–121
- . Microarray image processing based on clustering and morphological analysis. In: Proceedings of 1st Asia Pacific Bioinformatics Conference, vol. 2. 2003;p. 111–118
- . Unsupervised technique for robust target separation and analysis of DNA microarray spots through adaptive pixel clustering. Bioinformatics. 2002;18:747–756
- . Hybrid clustering for microarray image analysis combining intensity and shape features. BMC Bioinformatics. 2004;5:1–11
- . Hybrid spot segmentation in four-channel microarray genotyping image data. In: IEEE International Symposium on Signal Processing and Information Technology. 2006;p. 11–16
- . Intensity-based segmentation of microarray images. IEEE Transactions on Medical Imaging. 2003;22:882–889
- . Donuts, scratches and blanks: robust model-based segmentation of microarray images. Bioinformatics. 2005;21:2875–2882
- . Evaluating the performance of microarray segmentation algorithms. Bioinformatics. 2006;22:29100–32917
- The Stanford microarray database: data access and quality assessment tools. Nucleic Acids Research. 2003;31:94–96
- . An automated method for gridding in microarray images. In: Proceedings of 28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society. 2006;p. 5876–5879
- . Data mining concepts, models, methods, and algorithms. IEEE Wiley Press; 2003;
- . Voronoi diagrams—a survey of a fundamental geometric data structure. ACM Computing Surveys. 1991;23:345–405
- . Some methods for classification and analysis of multivariate observations. In: Proceedings of 5th Berkeley Symposium on Mathematical Statistics and Probability, vol. 1. Berkeley: University of California Press; 1967;p. 281–297
- . Pattern recognition with fuzzy objective function algorithms. New York: Plenum Press; 1981;
- . Statistical issues in cDNA microarray data analysis. Methods in Molecular Biology Series. 2003;224:111–136
PII: S0895-6111(08)00101-8
doi: 10.1016/j.compmedimag.2008.10.003
© 2008 Elsevier Ltd. All rights reserved.
« Previous
Next »
Computerized Medical Imaging and Graphics
Volume 33, Issue 1
, Pages 40-49
, January 2009
