Ph.D. Candidate

    Database and Information Systems Research Laboratory
    Department of Computer Science
    University of Illinois, Urbana-Champaign

   Email: xuling [AT] Illinois [DOT] edu

I am a Ph.D. student in the CS department at UIUC. My advisors are Professor Chengxiang Zhai and Professor Saurabh Sinha. I also work closely with Professor Bruce Schatz and Professor Gene Robinson.

My general research interests are in the area of bioinformatics, targeting at developing principled methodology for solving computational problems related to molecular biology. I am especially interested in approaches that exploit probabilistic models, machine learning, data mining, and integrative analysis. My current focus is on comparative genomics studies, developing and applying both statistical models and data mining algorithms to problems of regulatory genomics and genome evolution. I also conducted research in mining and summarizing facts and knowledge from text collections including biomedical literature. I am becoming interested in the development and application of approaches that integrate different sources of information at different levels into a comprehensive framework to make new biological discoveries.
　

Xu Ling, Xin He. Detecting gene clusters under evolutionary constraint in a large number of genomes. Bioinformatics (to appear). [ Supplementary Data ]

Xin He, Xu Ling, Saurabh Sinha. Alignment and prediction of regulatory sequences based on a probabilistic model of evolution. PLoS Computational Biology (to appear).

Xu Ling, Qiaozhu Mei, ChengXiang Zhai, Bruce R. Schatz. Mining multi-faceted overviews of arbitrary topics in a text collection. Proceedings of the 15th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 08): 497-505.

Xu Ling, Xin He, Dong Xin, Jiawei Han. Efficiently Identify Max-Gap Clusters in Pairwise Genome Comparison. Journal of Computational Biology, July 2008, 15(6) : 593-609.

Xu Ling, Jing Jiang, Xin He, Qiaozhu Mei, ChengXiang Zhai, Bruce Schatz. Generating gene summaries from biomedical literature: A study of semi-structured summarization. Information Processing and Management (IPM) 43, 2007, 1777-1791.

Xu Ling, Jing Jiang, Xin He, Qiaozhu Mei, ChengXiang Zhai, Bruce Schatz. Automatically Generating Gene Summaries from Biomedical Literature. Proceedings of the Pacific Symposium on Biocomputing 2006 (PSB 06), pages 41-50. [ Software Release ]

Saurabh Sinha, Xu Ling, Charles W. Whitfield, ChengXiang Zhai, and Gene E. Robinson, Genome scan for cis-regulatory DNA motifs associated with social behavior in honey bees, Proceedings of National Academy of Sciences of the United States of America (PNAS) , 103(44), Oct. 2006, pages 16352-16357.

Y. Wang, M. Jorda, PL. Jones, R. Maleszka, X. Ling, HM. Robertson, CA. Mizzen, MA. Peinado, GE. Robinson, Functional CpG methylation system in a social insect. Science, 2006 Oct 27;314(5799):578-579.

Verizon Fellowship, University of Illinois

Meritorious Prize in Interdisciplinary Contest in Modeling, SIAM/NSA/INFORMS