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Clustering Biological Data Using Voronoi Diagram

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Part of the book series: Lecture Notes in Computer Science ((LNISA,volume 7135))

Abstract

Clustering is an essential tool in data mining that has drawn enormous attention. In this paper, we present a new clustering algorithm with the help of Voronoi diagram. Here the clusters are formed by considering the neighboring Voronoi cells. The points belong to the closer Voronoi cells are merged to form the clusters. The similarity of the points is measured based on Euclidean distance of the neighboring points and hence it is not necessary to compare the distances from one point to all other points of the given set. We perform various experiments using many synthetic and biological data sets. The experimental results demonstrate the significance of the proposed method.

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References

  1. Jain, A.K., Dubes, R.C.: Algorithms for Clustering. Prentice Hall, New Jersey (1988)

    MATH  Google Scholar 

  2. Liu, Z., Zheng, Q., Xue, L., Guan, X.: A Distributed Energy-Efficient Clustering Algorithm With Improved Coverag. Wireless Sensor Networks. Future Generation Computer Systems (2011)

    Google Scholar 

  3. Juang, L., Wu, M.N.: Psoriasis Image Identification using K-means Clustering with Morphological Processing. Measurement 44, 895–905 (2011)

    Article  Google Scholar 

  4. Nasibov, E.N., Ulutagay, G.: Comparative Clustering Analysis of Bispectral Index Series of Brain Activity. Expert Systems with Applications 37, 2495–2504 (2010)

    Article  Google Scholar 

  5. Console, R., Murru, M., Catalli, F.: Physical and Stochastic Models of Earthquake Clustering. Tectonophysics 417, 141–153 (2006)

    Article  Google Scholar 

  6. Murty, M.N., Jain, A.K.: Knowledge-based Clustering Scheme for Collection Management and Retrieval of Library Books, vol. 28, pp. 949–963 (1995)

    Google Scholar 

  7. Chou, C.A., Chaovalitwongse, W.A., Berger-Wolf, T.Y., DasGupta, B., Ashley, M.V.: Capacitated Clustering Problem in Computational Biology: Combinatorial and Statistical Approach for Sibling Reconstruction. Computers & Operations Research 39, 609–619 (2012)

    Article  MathSciNet  Google Scholar 

  8. Kawamura, T., Mutoh, H., Tomita, Y., Kato, R., Honda, H.: Cancer DNA Microarray Analysis Considering Multi-subclass with Graph-based Clustering Method, vol. 106, pp. 442–448 (2008)

    Google Scholar 

  9. Gonzalez-Barrios, J.M., Quiroz, A.J.: A Clustering Procedure based on the Comparison between the K-nearest Neighbors Graph and the Minimal Spanning Tree. Statistics and Probability Letters 62, 23–24 (2003)

    Article  MathSciNet  MATH  Google Scholar 

  10. Paivinen, N.: Clustering with a Minimum Spanning Tree of Scale-Free-like Structure. Pattern Recognition Letters 26, 921–930 (2005)

    Article  Google Scholar 

  11. Jana, P.K., Misra, M.P., Raj, A.: A Voronoi diagram based Clustering Algorithm. Advanced Computer Engineering 3, 79–84 (2010)

    Google Scholar 

  12. Redmond, S.J., Heneghan, C.: A Method for Initializing the K-means Clustering Algorithm using kd-trees. Pattern Recognition Letters 28, 965–973 (2007)

    Article  Google Scholar 

  13. Preparata, F.P., Shamos, M.I.: Computational Geometry-An Introduction. Springer, Heidelberg (1985)

    Google Scholar 

  14. Yan, H., Weibel, R.: An Algorithm for Point Cluster Generalization based on the Voronoi Diagram. Computers & Geosciences 34, 939–954 (2008)

    Article  Google Scholar 

  15. Jiang, D., Pei, J., Zhang, A.: DHC: A Density-based Hierarchical Clustering Method for Time Series Gene Expression Data. In: IEEE Symposium on Bioinformatics and Bio-Engineering (BIBE 2003), pp. 1–8 (2003)

    Google Scholar 

  16. Bishnu, P.S., Bhattacherjee, V.: CTVN: Clustering Technique Using Voronoi Diagram. Recent Trends in Engineering 2, 13–15 (2009)

    Google Scholar 

  17. Kao, B., Lee, S.D., Lee, F.K.F.: Clustering Uncertain Data using Voronoi Diagrams and R-Tree Index. IEEE Trans. on Knowledge and Data Engg. 22, 1219–1233 (2010)

    Article  Google Scholar 

  18. Shen, J., Chang, S.I., Lee, E.S., Deng, Y., Brown, S.J.: Determination of Cluster Number in Clustering Microarray Data. Applied Mathematics and Computation 169, 1172–1185 (2005)

    Article  MathSciNet  MATH  Google Scholar 

  19. UCI Machine Learning Repository, http://archive.ics.uci.edu/ml/datasets.html

  20. Bezdek, J.C., Ehrlich, R., Full, W.: FCM: The Fuzzy C-means Clustering Algorithm. Computers and Geosciences 10, 191–203 (1984)

    Article  Google Scholar 

  21. Geraci, F., Leoncini, M., Montangero, M., Pellegrini, M., Renda, M.E.: FPF-SB: A Scalable Algorithm for Microarray Gene Expression Data Clustering. In: Duffy, V.G. (ed.) HCII 2007 and DHM 2007. LNCS, vol. 4561, pp. 606–615. Springer, Heidelberg (2007)

    Chapter  Google Scholar 

  22. Ng, A.Y., Jordan, M.I., Weiss, Y.: On Spectral Clustering: Analysis and an Algorithm. In: International Conference on Advances in Neural Information Processing Systems, NIPS 2001, Vancouver, British Columbia, Canada (2001)

    Google Scholar 

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Edla, D.R., Jana, P.K. (2012). Clustering Biological Data Using Voronoi Diagram. In: Thilagam, P.S., Pais, A.R., Chandrasekaran, K., Balakrishnan, N. (eds) Advanced Computing, Networking and Security. ADCONS 2011. Lecture Notes in Computer Science, vol 7135. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-29280-4_21

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  • DOI: https://doi.org/10.1007/978-3-642-29280-4_21

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-29279-8

  • Online ISBN: 978-3-642-29280-4

  • eBook Packages: Computer ScienceComputer Science (R0)

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