Skip to main content

Mining Frequent and Associated Gene Expression Patterns from Spatial Gene Expression Data: A Proposed Approach

  • Conference paper
Book cover Contemporary Computing (IC3 2010)

Part of the book series: Communications in Computer and Information Science ((CCIS,volume 94))

Included in the following conference series:

  • 1129 Accesses

Abstract

In recent years interest has grown in “mining” spatial gene expression databases to extract novel and interesting information. Knowledge Discovery in Databases (KDD) has been recognized as an emerging research area. Association rules discovery is an important KDD technique for better data understanding. This paper proposes an enhancement with a fast and memory efficient algorithm to mine association rules from spatial gene expression data. In this paper, the features of Similarity matrix, Boolean matrix and Bit operations are combined to generate frequent gene expression patterns without candidate generation and association rules with fixed antecedent and multiple consequents using Bit operations has been generated. The obtained results accurately reflected knowledge hidden in the datasets under examination.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 84.99
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 109.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Agrawal, R., Imielinski, T., Swami, A.: Mining Association rules between sets of items in large databases. In: ACM SIGMOD Intl Conf. on Management of Data (ACM SIGMOD 1993), Washington, USA, pp. 207–216 (1993)

    Google Scholar 

  2. Agrawal, R., Srikant, R.: Fast Algorithms for Mining Association Rules in large databases. In: 20th International Conference on Very Large Databases, Santiago, Chile, pp. 487–499 (1994)

    Google Scholar 

  3. Baldock, R.A., Bard, J.B., Burger, A., Burton, N., Christiansen, J., Feng, G., Hill, B., Houghton, D., Kaufman, M., Rao, J., et al.: EMAP and EMAGE: a framework for understanding spatially organized data. J. Neuroinformatics 1, 309–325 (2003)

    Article  Google Scholar 

  4. Becquet, C., Blachon, S., Jeudy, B., Boulicaut, J., Gandrillon, O.: Strong association rule mining for large-scale gene-expression data analysis: a case study on human sage data. J. Genome Biology 3 (2002), research0067.1-0067.16

    Google Scholar 

  5. Creighton, C., Hanash, S.: Mining gene expression databases for association rules. J. Bioinformatics 19(1), 79–86 (2003)

    Article  Google Scholar 

  6. EMAGE Spatial Gene Expression Data, http://genex.hgu.mrc.ac.uk/Emage/database

  7. van Hemert, J., Baldock, R.: Mining Spatial Gene Expression Data for Association Rules. In: Hochreiter, S., Wagner, R. (eds.) BIRD 2007. LNCS (LNBI), vol. 4414, pp. 66–76. Springer, Heidelberg (2007)

    Chapter  Google Scholar 

  8. Venkataraman, S., Stevenson, P., Yang, Y., Richardson, L., Burton, N., Perry, T.P., Smith, P., Baldock, R.A., Davidson, D.R., Christiansen, J.H.: Emage -Edinburgh mouse atlas of gene expression: 2008 update. J. Nucleic Acids Research 36, 860–865 (2008)

    Article  Google Scholar 

  9. Deloado, M., Martin, N., Sanchez, D.: Mining fuzzy Association rules: an overview. In: Studies in Fuzziness and Soft Computing, vol. 164, pp. 351–373. Springer, Heidelberg (2005)

    Google Scholar 

  10. Cong, G., Tung, A.K.H., Xu, X., Pan, F., Yang, J.: Farmer: Finding interesting rule groups in microarray datasets. In: 23rd ACM SIGMOD International Conference on Management of Data, Paris, France, pp. 143–154 (2004)

    Google Scholar 

  11. He, Y., Hui, S.C.: Exploring ant-based algorithms for gene expression data analysis. J. Artificial Intelligence in Medicine 47(2), 105–119 (2009)

    Article  Google Scholar 

  12. Koh, J.L.Y., Li Lee, M.: Duplicate Detection in Biological Data using Association Rule Mining. In: Second European Workshop on Data Mining and Text Mining in Bioinformatics, pp. 34–41 (2005)

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2010 Springer-Verlag Berlin Heidelberg

About this paper

Cite this paper

Anandhavalli, M., Ghose, M.K., Gauthaman, K. (2010). Mining Frequent and Associated Gene Expression Patterns from Spatial Gene Expression Data: A Proposed Approach. In: Ranka, S., et al. Contemporary Computing. IC3 2010. Communications in Computer and Information Science, vol 94. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-14834-7_12

Download citation

  • DOI: https://doi.org/10.1007/978-3-642-14834-7_12

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-14833-0

  • Online ISBN: 978-3-642-14834-7

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics