A classification-based segmentation of cDNA microarray images using support Vector machines

Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology"

Volumn , Issue , 2008, Pages 875-878

  Giannakeas, Nikolaos ^a   Karvelis, Petros S ^a   Fotiadis, Dimitrios I ^a  

^a UNIVERSITY OF IOANNINA   (Greece)

Author keywords

[No Author keywords available]

Indexed keywords

IMAGE SEGMENTATION; PIXELS; SUPPORT VECTOR MACHINES;

CDNA MICROARRAY IMAGES; CLASSIFICATION TECHNIQUE; EXPRESSION LEVELS; IMAGE PROCESSING TECHNIQUE; MICROARRAY TECHNOLOGIES; PRE-PROCESSING STEP; SIMULTANEOUS ANALYSIS; SUPERVISED METHODS;

IMAGE CLASSIFICATION;

ALGORITHM; ARTICLE; ARTIFICIAL INTELLIGENCE; AUTOMATED PATTERN RECOGNITION; CLUSTER ANALYSIS; COMPUTER ASSISTED DIAGNOSIS; DNA MICROARRAY; FLUORESCENCE MICROSCOPY; GENE EXPRESSION PROFILING; IMAGE ENHANCEMENT; METHODOLOGY; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY;

ALGORITHMS; ARTIFICIAL INTELLIGENCE; CLUSTER ANALYSIS; GENE EXPRESSION PROFILING; IMAGE ENHANCEMENT; IMAGE INTERPRETATION, COMPUTER-ASSISTED; MICROSCOPY, FLUORESCENCE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PATTERN RECOGNITION, AUTOMATED; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY;

EID: 61849134737     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/iembs.2008.4649293     Document Type: Conference Paper

References (18)

1. M.B. Eisen, and P.O. Brown, "DNA Arrays for Analysis of Gene Expression," Methods Enzymol, vol. 303, pp. 179-205, 1999.
2. M. Schena, D. Shalon, R.W. Davis, and P.O. Brown, "Quantitative motoring of gene expression patterns with a complementary DNA microarray," Science, vol. 270, pp. 467-470, 1995.
3. A. Bengtsson and H. Bengtsson, "Microarray image analysis: background estimation using quantile and morphological filters," BMC Bioinformatics, vol. 7, pp.:96, 2006
4. R. Lukac, K.N. Plataniotis, B. Smolka, and A.N. Venetsanopoulos, "cDNA microarray image processing using fuzzy vector filtering framework," Fuzzy Sets and Systems, vol. 152 (1), pp. 17-35, 2005.
5. X.H. Wang, R.S.H. Istepanian, and H.S. Yong, "Microarray image enhancement by denoising using stationary wavelet transform," IEEE Transactions on NanoBioscience, vol. 2(4), pp. 184-189, 2003
6. M.B. Eisen, ScanAlyse, http://rana.Stanford.EDU/software/, 1999.
7. QuantArray Analysis Software, http://lifesciences.perkinelmer.com.
8. Y. Chen, E.R. Dougherty, and M.L. Bittner, "Ratio-Based Decisions and the Quantitative Analysis of cDNA Microarray Images," Journal Of Biomedical Optics vol. 2(4), pp. 364-374, 1997.
9. M.J. Buckley, Spot User's Guide, CSIRO Mathematical and Information Sciences, Sydney, Australia, 2000.
10. K.I. Siddiqui, A. Hero, and M. Siddiqui, "Mathematical Morphology applied to Spot Segmentation and Quantification of Gene Microarray Images," in Proc. of Asilomar Conf. on Signals and Systems, 2002.
11. D. Bozinov, and J. Rahnenfuhrer, "Unsupervised technique for robust target separation and analysis of DNA microarray spots through adaptive pixel clustering," Bioinform., vol. 18, pp. 747-756, 2002.
12. E. Ergüt, Y. Yardimci, E. Mumcuoglu, O. Konu, "Analysis of microarray imagesusing FCM and K-means clustering algorithm," in Proc IJCI, pp. 116-121, 2003.
13. K. Blekas, N. Galatsanos, A. Likas, and I.E. Lagaris, "Mixture Model Analysis of DNA Microarray Images," IEEE Transactions on Medical Imaging, vol. 24(7), pp. 901-909, 2005.
14. Q. Li, C. Fraley, R.E. Bumgarner, K.Y. Yeung, and A.E. Raftery, "Donuts, scratches and blanks: robust model-based segmentation of microarray images," Bioinformatics, vol. 21, pp. 2875-2882, 2005.
15. N. Giannakeas, and D.I. Fotiadis, "Multichannel Segmentation of cDNA Microarray Images using the Bayes Classifier," 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2007.
16. C.J.C. Burges, "A Tutorial on Support Vector Machines for Pattern Recognition," D. M. and Kn. Discovery vol. 2, pp. 121-167, 1998.
17. J. Gollub, C. A. Ball, G. Binkley, K. Demeter, D. B. Finkelstein, J. M. Hebert, T. Hernandez-Boussard, H. Jin, M. Kaplper, J. C. Matese, M. Schroeder, P. O. Brown, D. Botstein, and G. Sherlock, "The Stanford Microarray Database: data access and quality assessment tools," Nucleic Acids Res., vol. 31, pp. 94-96, 2003.
18. M. Nykter, T. Aho, M. Ahdesmäki, P. Ruusuvuori, A. Lehmussola and O. Yli-Harja, "Simulation of microarray data with realistic characteristics." BMC Bioinformatics, vol. 7, 2006.