Assistant Professor Chen Xin
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Journal Publications (Refereed & International)
  1. X. Chen. Curve-based clustering of time course gene expression data using self-organizing maps. Journal of Bioinformatics and Computational Biology, vol. 7, No. 4, pp. 645-661, 2009. [download]
  2. X. Chen and Y. Cui. An approximation algorithm for the minimum breakpoint linearization problem. IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 6, no. 3, pp. 401-409, 2009.  [download]
  3. X. Chen, L. Liu, Z. Liu, and T. Jiang. On the minimum common integer partition problem. ACM Transactions on Algorithms (TALG). 5(1), Article 12, 2008. [download]
  4. X. Chen, L. Guo, Z. Fan, and T. Jiang. W-AlignACE: an improved Gibbs sampling algorithm based on more accurate position weight matrices learned from sequence and gene expression/ChIP-chip data. Bioinformatics, 2008 (doi: 10.1093/bioinformatics/btn088). [download]
  5. Z. Fu, X. Chen, V. Vacic, P. Nan, Y. Zhong, and T. Jiang. MSOAR: A high-throughput ortholog assignment system based on genome rearrangement. Journal of Computational Biology, 14(9), 1160-1175, 2007 (Joint First Author). [download]
  6. H. Li, X. Chen, K. Zhang, and T. Jiang. A general framework for biclustering gene expression data. Journal of Bioinformatics and Computational Biology, vol. 4, pp. 911-933, 2006. [download]
  7. X. Chen, J. Zheng, Z. Fu, P. Nan, Y. Zhong, S. Lonardi and T. Jiang. Assignment of orthologous genes via genome rearrangement. IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 2, no. 4, pp. 302-315, 2005. [download]
  8. M. Li, X. Chen, X. Li, B. Ma and P. Vitanyi. The similarity metric. IEEE Transactions on Information Theory, vol. 50, pp. 3250-3264, 2004. [download]
  9. X. Chen, B. Francia, M. Li, B. Mckinnon and A. Seker. Shared Information and Program Plagiarism Detection. IEEE Transactions on Information Theory, vol. 50, pp. 1545-1551, 2004. [download]
  10. X. Chen, Z. Su, P. Dam, B. Palenik, Y. Xu and T. Jiang. Operon prediction by comparative genomics: an application to the Synechococcus sp. WH8102 genome. Nucleic Acids Research, 32 (7), 2147-2157, 2004. [download]
  11. X. Chen, M. Li, B. Ma and J. Tromp. DNACompress: fast and effective DNA sequence compression. Bioinformatics, 18: 1696-1698, 2002. [download]
  12. X. Chen, S. Kwong and J.F. Feng. A new compression scheme for color-quantized images. IEEE Transactions on Circuits and Systems for Video Technology, 12(10), pp. 904-908, 2002. [download]
  13. X. Chen, S. Kwong and M. Li. A compression algorithm for DNA sequences. IEEE Engineering in Medicine and Biology Magazine, 20(4), 61-66, Jul/Aug. 2001. [download]
  14. M. Li, J. H. Badger, X. Chen, S. Kwong, P. Kearney and H. Zhang. An information based sequence distance and its application to whole mitochondrial genome phylogeny. Bioinformatics, 17(2): 149-154, 2001. [download]
Conference Publication
  1. J. Yang, Z. Peng, and X. Chen. Prediction of protein structural classes for low-homology sequences based on predicted secondary structure. Acceptted by APBC 2010. [download]
  2. X. Chen, L. Guo, Z. Fan, and T. Jiang. Learning position weight matrices from sequence and expression data. Acceptted by CSB 2007. [download]
  3. X. Chen, T. Jiang. An improved Gibbs sampling method for motif discovery via sequence weighting. CSB'06, pp. 239-247. [download]
  4. X. Chen, L. Liu, Z. Liu, T. Jiang. On the minimum common integer partition problem. The 6th Conference on Algorithms and Complexity, Italy, 2006. [download]
  5. Z. Fu, X. Chen, V. Vacic, P. Nan, Y. Zhong, and T. Jiang. A parsimony approach to genome-wide ortholog assignment. RECOMB, pp. 578-594, 2006 (Joint First Author). [download]
  6. Z. Liu, X. Chen, J. Borneman and T. Jiang. A fast algorithm for approximate string matching on gene sequences. The 16th Annual Symposium on Combinatorial Pattern Matching, pp. 79-90, 2005. [download]
  7. X. Chen, J. Zheng, Z. Fu, P. Nan, Y. Zhong, S. Lonardi and T. Jiang. Computing the assignment of orthologous genes via genome rearrangement. The 3rd Asia Pacific Bioinformatics Conference, 2005 (invited). [download]
  8. X. Chen, Z. Su, Y. Xu and T. Jiang. Computational prediction of operons in Synechococcus sp. WH8102. Proceedings of 15th International Conference on Genome Informatics (GIW'04), pp. 211-222, 2004 (The Best Paper Award). [download]
  9. M. Li, X. Chen, X. Li, B. Ma and P. Vitanyi. The similarity metric. Proceedings of 14th ACM/SIAM Symposium Discrete Algorithms (SODA), Baltimore, Maryland, pp. 863-872, 2003. [download]
  10. Z. Su, A. Dam, X. Chen, V. Olman, T. Jiang, B. Palenik and Y. Xu. Computational Inference of Regulatory Pathways in Microbes: an application to the construction of phosphorus assimilation pathways in Synechococcus sp. WH8102. Proceedings of 14th International Conference on Genome Informatics, pp. 3-13, 2003. [download]
  11. X. Chen, J.F. Feng and S. Kwong. Lossy and lossless compression for color-quantized images. IEEE International Conference on Image Processing, pp. 870-873, Greece, Oct. 2001. [download]
  12. X. Chen, S. Kwong and M. Li. A compression algorithm for DNA sequences and its applications in genome comparison. The Tenth Workshop on Genome Informatics (GIW'99), pp. 51-61, 1999 (The Best Paper Award). [download]

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