Skip to main content

Adaptive Matching Based Kernels for Labelled Graphs

  • Conference paper
Advances in Knowledge Discovery and Data Mining (PAKDD 2010)

Part of the book series: Lecture Notes in Computer Science ((LNAI,volume 6119))

Included in the following conference series:

Abstract

Several kernels over labelled graphs have been proposed in the literature so far. Most of them are based on the Cross Product (CP) Kernel applied on decompositions of graphs into sub-graphs of specific types. This approach has two main limitations: (i) it is difficult to choose a-priori the appropriate type of sub-graphs for a given problem and (ii) all the sub-graphs of a decomposition participate in the computation of the CP kernel even though many of them might be poorly correlated with the class variable. To tackle these problems we propose a class of graph kernels constructed on the proximity space induced by the graph distances. These graph distances address the aforementioned limitations by learning combinations of different types of graph decompositions and by flexible matching the elements of the decompositions. Experiments performed on a number of graph classification problems demonstrate the effectiveness of the proposed approach.

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. Shawe-Taylor, J., Cristianini, N.: Kernel Methods for Pattern Analysis. Cambridge University Press, Cambridge (2004)

    Google Scholar 

  2. Gärtner, T.: A survey of kernels for structured data. SIGKDD Explor. Newsl. 5(1), 49–58 (2003)

    Article  Google Scholar 

  3. Gärtner, T., Flach, P., Wrobel, S.: On graph kernels: Hardness results and efficient alternatives. In: Proceedings of COLT 16 and the 7th Kernel Workshop (2003)

    Google Scholar 

  4. Ramon, J., Gärtner, T.: Expressivity versus efficiency of graph kernels. In: First International Workshop on Mining Graphs, Trees and Sequences (held with ECML/PKDD’03) (2003)

    Google Scholar 

  5. Kashima, H., Tsuda, K., Inokuchi, A.: Marginalized kernels between labeled graphs. In: ICML, Washington, DC (2003)

    Google Scholar 

  6. Mahé, P., Ueda, N., Akutsu, T., Perret, J.L., Vert, J.P.: Extensions of marginalized graph kernels. In: ICML (2004)

    Google Scholar 

  7. Borgwardt, K.M., Ong, C.S., Schönauer, S., Vishwanathan, S., Smola, A.J., Kriegel, H.P.: Protein function prediction via graph kernels. Bioinformatics 21(1), i47–i56 (2005)

    Article  Google Scholar 

  8. Ralaivola, L., Swamidass, S.J., Saigo, H., Baldi, P.: Graph kernels for chemical informatics. Neural Networks, 1093–1110 (2005)

    Google Scholar 

  9. Borgwardt, K.M., Kriegel, H.P.: Shortest-path kernels on graphs. In: ICDM (2005)

    Google Scholar 

  10. Fröhich, H., Wegner, J., Sieker, F., Zell, A.: Optimal assignment kernels for attributed molecular graphs. In: ICML (2005)

    Google Scholar 

  11. Horváth, T., Gärtner, T., Wrobel, S.: Cyclic pattern kernels for predictive graph mining. In: KDD (2004)

    Google Scholar 

  12. Menchetti, S., Costa, F., Frasconi, P.: Weighted decomposition kernels. In: ICML (2005)

    Google Scholar 

  13. Sherashidze, N., Vishwanathan, S., Petri, T., Mehlhorn, K., Borgwardt, K.: Efficient graphlet kernels for large graph comparison. In: 12th AISTATS (2009)

    Google Scholar 

  14. Ben-David, S., Eiron, N., Simon, H.: Limitations of learning via embeddings in euclidean half spaces. Journal of Machine Learning Research 3, 441–461 (2002)

    Article  MathSciNet  Google Scholar 

  15. Collins, M., Duffy, N.: Convolution kernels for natural language. In: NIPS (2002)

    Google Scholar 

  16. Cumby, C., Roth, D.: On Kernel Methods for Relational Learning. In: ICML (2003)

    Google Scholar 

  17. Woźnica, A., Kalousis, A., Hilario, M.: Distances and (indefinite) kernels for sets of objects. In: ICDM (2006)

    Google Scholar 

  18. Vert, J.P.: The optimal assignment kernel is not positive definite (2008)

    Google Scholar 

  19. Lanckriet, G., Cristianini, N., Bartlett, P.L., Ghaoui, L.E., Jordan, M.: Learning the kernel matrix with semi-definite programming. Journal of Machine Learning Research 5 (2004)

    Google Scholar 

  20. Pekalska, E., Duin, R.: The Dissimilarity Representation for Pattern Recognition. In: Foundations and Applications. World Scientific Publishing Company, Singapore (2005)

    Google Scholar 

  21. Goldberger, J., Roweis, S., Hinton, G., Salakhutdinov, R.: Neighbourhood component analysis. In: NIPS. MIT Press, Cambridge (2005)

    Google Scholar 

  22. Woźnica, A., Kalousis, A., Hilario, M.: Matching based kernels for labeled graphs. In: Mining and Learning with Graphs (MLG 2006), with ECML/PKDD, Berlin, Germany (2006)

    Google Scholar 

  23. Ramon, J., Bruynooghe, M.: A polynomial time computable metric between point sets. Acta Informatica 37(10), 765–780 (2001)

    Article  MATH  MathSciNet  Google Scholar 

  24. Gärtner, T., Lloyd, J.W., Flach, P.A.: Kernels and distances for structured data. Mach. Learn. 57(3), 205–232 (2004)

    Article  MATH  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

Woźnica, A., Kalousis, A., Hilario, M. (2010). Adaptive Matching Based Kernels for Labelled Graphs. In: Zaki, M.J., Yu, J.X., Ravindran, B., Pudi, V. (eds) Advances in Knowledge Discovery and Data Mining. PAKDD 2010. Lecture Notes in Computer Science(), vol 6119. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-13672-6_37

Download citation

  • DOI: https://doi.org/10.1007/978-3-642-13672-6_37

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-13671-9

  • Online ISBN: 978-3-642-13672-6

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics