Kuang, Rui, Christina S Leslie, and An-Suei Yang. 2004. “Protein Backbone Angle Prediction With Machine Learning Approaches”. Bioinformatics 20. Oxford University Press: 1612-21.
String Kernels and Kernel Methods
Tian, Ze, and Rui Kuang. 2010. “Integrative Classification and Analysis of Multiple ArrayCGH Datasets With Probe Alignment”. Bioinformatics 26. Oxford University Press: 2313-20.
Kuang, Rui, Eugene Ie, Ke Wang, Kai Wang, Mahira Siddiqi, Yoav Freund, and Christina Leslie. 2005. “Profile-Based String Kernels for Remote Homology Detection and Motif Extraction”. Journal of Bioinformatics and Computational Biology 3. World Scientific: 527-50.
Leslie, Christina, Rui Kuang, and Eleazar Eskin. 2004. “Inexact Matching String Kernels for Protein Classification”. Kernel Methods in Computational Biology. MIT Press, Cambridge, MA, 95-112.
Min, Renqiang, Rui Kuang, Anthony Bonner, and Zhaolei Zhang. 2009. “Learning Random-Walk Kernels for Protein Remote Homology Identification and Motif Discovery”. In Proceedings of the 2009 SIAM International Conference on Data Mining, 133-44. SIAM.
Melvin, Iain, Eugene Ie, Rui Kuang, Jason Weston, William Stafford Noble, and Christina Leslie. 2007. “SVM-Fold: A Tool for Discriminative Multi-Class Protein Fold and Superfamily Recognition”. In BMC Bioinformatics, 8:1-15. Springer.
Leslie, Christina, and Rui Kuang. 2004. “Fast String Kernels Using Inexact Matching for Protein Sequences”. Journal of Machine Learning Research 5: 1435-55.
Ngo, Thanh, and Rui Kuang. 2009. “Partial Profile Alignment Kernels for Protein Classification”. In 2009 IEEE International Workshop on Genomic Signal Processing and Statistics, 1-4. IEEE.
Kuang, Rui, Jianying Gu, Hong Cai, and Yufeng Wang. 2009. “Improved Prediction of Malaria Degradomes by Supervised Learning With SVM and Profile Kernel”. Genetica 136. Springer: 189-209.
Leslie, Christina, and Rui Kuang. 2003. “Fast Kernels for Inexact String Matching”. In Learning Theory and Kernel Machines: 16th Annual Conference on Learning Theory and 7th Kernel Workshop, COLT Kernel 2003, Washington, DC, USA, August 24-27, 2003. Proceedings, 114-28. Springer.