Eric Xing's Publications List

Bioinformatics

K. Sohn and E. P. Xing, Spectrum: Joint Bayesian Inference of Population Structure and Recombination Event, The Fifteenth International Conference on Intelligence Systems for Molecular Biology (ISMB 2007).

E. P. Xing, M. Jordan, and R. Roded, Bayesian Haplotype Inference via the Dirichlet Process, Journal of Computational Biology, Volume 14, Number 3, Pp. 267-284, 2007.

E. P. Xing and K. Sohn, Hidden Markov Dirichlet Process: Modeling Genetic Recombination in Open Ancestral Space, Bayesian Analysis, Volunn 2, Number 2, 2007. A synopsis of this paper also appears in Bayesian Statistics 8, the Proc. Valencia / ISBA 8th World Meeting on Bayesian Statistics.

H. Kamisetty, E. P. Xing, C. J. Langmead, Free Energy Estimates of All-atom Protein Structures Using Generalized Belief Propagation, The Eleventh Annual International Conference on Research in Computational Molecular Biology (RECOMB 2007).

Y. Shi, F. Guo, W. Wu and E. P. Xing, GIMscan: A New Statistical Method for Analyzing Whole-Genome Array CGH Data, The Eleventh Annual International Conference on Research in Computational Molecular Biology (RECOMB 2007).

F. Guo, W. Fu, Y. Shi and E. P. Xing, Reverse engineering temporally rewiring gene networks, The NIPS workshop on New Problems and Methods in Computational Biology (NIPS2006).

K. Sohn and E. P. Xing, Hidden Markov Dirichlet Process: Modeling Genetic Recombination in Open Ancestral Space, Advances in Neural Information Processing Systems 19 (NIPS2006). (full oral presentation, top 3%)

J-Y Pan, A. Balan, E.P. Xing, A. Traina and C. Faloutsos, Automatic Mining of Fruit Fly Embryo Images, The Twelfth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2006).

T. Lin, E.W. Myers and E.P. Xing, Interpreting Anonymous DNA Samples From Mass Disasters --- probabilistic forensic inference using genetic markers, Bioinformatics 22(14):e298-e306. (special issue for The Fourteenth International Conference on Intelligence Systems for Molecular Biology (ISMB 2006)).

E.P. Xing, K. Sohn, M.I. Jordan and Y.W. Teh, Bayesian Multi-Population Haplotype Inference via a Hierarchical Dirichlet Process Mixture, Proceedings of the 23st International Conference on Machine Learning, (ICML 2006).

E.M Airodi, D.M. Blei, E.P. Xing and S.E. Fienberg, Mixed membership stochastic block models for relational data, with applications to protein-protein interactions, Proceedings of International Biometric Society-ENAR Annual Meetings (2006). (Recipient of the John Van Ryzin Award).

W. Wu, N. Dave, G.C. Tseng, T. Richards, E.P. Xing, and N. Kaminsky, Comparison of normalization methods for CodeLink Bioarray data. BMC Bioinformatics 2005, 6:309 (28 Dec, 2005).

W. Wu, E.P. Xing, C. Myers, I. S. Mian and M. J. Bissell, Evaluation of normalization methods for cDNA microarray data by k-NN classification. BMC Bioinformatics 2005, 6:191 (26 Jul, 2005) .

Y. Liu, E.P. Xing, and J. Carbonell, Predicting Protein Folds with Structural Repeats Using a Chain Graph Model. Proceedings of the 22st International Conference on Machine Learning, (ICML2005).

E.P. Xing, R. Sharan and M.I Jordan, Bayesian Haplotype Inference via the Dirichlet Process. Proceedings of the 21st International Conference on Machine Learning (ICML2004), (eds. Greiner and Schuurmans), ACM Press, 879-886, [ps]. An earlier version of this paper also appeared as a book chapter in Lecture Notes in Bioinformatics, Special issue for 2nd RECOMB Satellite Workshop on Computational Methods for SNPs and Haplotypes, 2004. (ps).

E.P. Xing and R. M. Karp, MotifPrototyper: a profile Bayesian model for motif family. Proc. Natl. Acad. Sci. vol. 101, no. 29, 10523-10528, 2004. [pnas site].

E.P. Xing, W. Wu, M.I. Jordan and R.M. Karp, LOGOS: A modular Bayesian model for de novo motif detection. Journal of Bioinformatics and Computational biology 2004, 2(1), 127-154. An earlier version of this paper was also presented in IEEE Computer Society Bioinformatics Conference (CSB2003). (ps)

E.P. Xing, Feature Selection in Microarray Analysis, in D.P. Berrar, W. Dubitzky and M. Granzow (Eds.), A Practical Approach to Microarray Data Analysis, Kluwer Academic Publishers, 2003.

E.P. Xing, M.I. Jordan, R.M. Karp and S. Russell, A Hierarchical Bayesian Markovian Model for Motifs in Biopolymer Sequences. Advances in Neural Information Processing Systems 16 (NIPS2002), (eds. Becker et al.) MIT Press, 2002. (ps) A long version with more biological results is available here.

E.P. Xing, M.I. Jordan and R.M. Karp, Feature selection for high-dimensional genomic microarray data, Proceedings of the Eighteenth International Conference on Machine Learning, (ICML2001). (ps)

E.P. Xing and R.M. Karp, CLIFF: Clustering of High-Dimensional Microarray Data via Iterative Feature Filtering Using Normalized Cuts, Bioinformatics 17 Suppl 1:S306-15, 2001. (special issue for The Ninth International Conference on Intelligence Systems for Molecular Biology, (ISMB 2001)).

E.P. Xing, C. Kulikowski, I. Muchnik, I. Dubchak, D. Wolf, S. Spengler and M. Zorn, Analysis of ribosomal RNA sequences by combinatorial clustering, Proceedings, The Seventh International Conference on Intelligence Systems for Molecular Biology (ISMB99), (Eds. T. Lengauer et al.) AAAI/MIT Press, Menlo Park, CA. P. 287-296, 1999.

Last updated 08/09/06