Publications [ home ]
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Regulatory genomics Xu Ling, Xin He, and Saurabh Sinha. Cis-regulatory module analysis using stochastic evolutionary model. (In preparation).Xin He, Xu Ling, Saurabh Sinha. Alignment and prediction of regulatory sequences based on a probabilistic model of evolution. PLoS Computational Biology (to appear). 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.
Comparative genomics, Evolutionary conserved gene clusters Xu Ling, Xin He. Detecting gene clusters under evolutionary constraint in a large number of genomes. Bioinformatics (to appear). 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.
Biomedical literature mining 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, 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. Xu Ling, Jing Jiang, Xin He, Qiaozhu Mei, Moushumi Sarma, ChengXiang Zhai, Gene Robinson, Bruce Schatz. Gene Summarizer: Software for automatically generating structured summaries from biomedical literature. 2nd International Biocuration Meeting, San Jose, California, Oct. 2007.
Others Qiaozhu Mei, Xu Ling, Matthew Wondra, Hang Su, ChengXiang Zhai. Topic sentiment mixture: modeling facets and opinions in weblogs. Proceedings of the 16th International World Wide Conference (WWW 2007): 171-180 ChengXiang Zhai, Xinghua Lu, Xu Ling, Xin He, Atulya Velivelli, Xuanhui Wang, Hui Fang and Azadeh Shakery. UIUC/MUSC at TREC 2005 Genomics Track. Proceedings of the Text REtrieval Conference (TREC 2005) 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. The Honeybee
Genome Sequencing Consortium,
Insights into social insects from the genome of
the honeybee Apis mellifera. Nature, Oct. 2006, 443: 931-949. |