Yuan (Alan) Qi

Yuan (Alan) Qi

Assistant Professor of Computer Science
Assistant Professor of Statistics
Assistant Professor of Biology (by courtesy)

Purdue University
305 N. University Street 
West Lafayette, IN 47907

E-mail: alanqi at cs dot purdue dot edu,  alanqi at stat dot purdue dot edu

 

Home  |  Research Interest  |  Papers Teaching | Presentations  |  Software   |  Misc.


News:  Two recent awards from National Science Foundation to support my group's research in statistical network modeling, scalable Bayesian learning, and their applications in systems biology, social networks, and materials science.

Awards: 
  The  A. Richard Newton Breakthrough Research Award from Microsoft Research, 2008
                              

Ph.D. MIT, 2005. 

I am looking for motivated graduate students with background in machine learning, statistical inference, or computational biology to work with me. If interested, please send me an email with your CV or resume in pdf.


Research Interest (more ...)

         Machine learning, computational biology, and Bayesian statistics

Recent Papers (more ...)

  • Variable sigma Gaussian processes: An expectation propagation perspective, Y. Qi, A. H. Abdel-Gawad, T. P. Minka, arXiv:0910.0668v1.
  • Parallel Inference for Latent Dirichlet Allocation onGraphics Processing Units,  F. Yan, N. Xu, Y. Qi,  to appear in Advances in Neural Information Processing Systems, 2009
  • Virtual Vector Machine for Bayesian Online Classification, T.P. Minka, R. Xiang,  and Y. Qi, Uncertainty in AI, 2009. [pdf]
  • Parameter Expanded Variational Bayesian Methods, Y. Qi and T.S. Jaakkola, in Advances in Neural Information Processing Systems 19, MIT Press, Cambridge, MA, 2007. [pdf]
  • Expectation Propagation for Signal Detection in Flat-fading Channels, Y. Qi & T.P. Minka, in IEEE trans. on Wireless Communications, vol. 6, no. 1, 348-355, 2007. [Preprint, IEEE notice]
  • Cortical Surface Shape Analysis Based on Spherical Wavelets, P. Yu, P. E. Grant, Y. Qi, X. Han, F. Segonne, R. Pienaar, E. Busa, J. Pacheco, N. Makris, R. L. Buckner, P. Golland, and B. Fischl, IEEE Transaction on Medical Imaging, 26(4):582-597, 2007. [html]
  • High-resolution Computational Models of Genome Binding Events, Y. Qi, A. Rolfe, K. D. MacIsaac, G. K. Gerber, D. Pokholok, J. Zeitlinger, T. Danford, R. D. Dowell, E. Fraenkel, T. S. Jaakkola, R. A. Young and D. K. Gifford, Nature Biotechnology, vol. 24, 963-970, August, 2006. [link]
  • Modularity and Dynamics of Cellular Networks, Y. Qi and H. Ge, PLoS Computational Biology, vol. 2, no. 12, 1502-1510, December, 2006. [html / pdf]
  • Semi-supervised Analysis of Gene Expression Profiles for Lineage-specific Development in the Caenorhabditis Elegans Embryo, Yuan (Alan) Qi, Patrycja E. Missiuro, Ashish Kapoor, Craig P. Hunter, Tommi S. Jaakkola, David K. Gifford and Hui Ge, Bioinformatics, vol. 22, no. 14, e417-e423, 2006. [Abstract, pdf]
  • Diagram Structure Recognition by Bayesian Conditional Random Fields, Y. Qi, M. Szummer, and T. P. Minka, in the Proceedings of International Conference on Computer Vision and Pattern Recognition,2005. [pdf/ps]

 Teaching

            2008  Fall CS590M Machine Learning

            2009 Spring  STAT598N Statistis in Systems Biology

            2009 Fall   CS59000-005 / STAT598N  Statistical Machine Learning (Qual 1 course for CS Ph.D. Students)

Selected Presentations

           Extending expectation propagation for graphical models, CMU CALD Machine learning lunch, April, 2004

           Bayesian learning for conditional models, MIT CSAIL seminar, September, 2005

Software

          The software package Joint Binding Deconvolution (JBD) accompanying  the paper  "High-resolution Computational Models of Genome Binding Events", [download].

           Matlab implementation of our new spectrum estimation algorithm, [download] .

Misc.

           Some photos I have taken in Brazil (Amazon, Iguazu Falls), Spain (Valencia, Madrid, and Barcelona),  Japan (Kyoto and Tokyo), and  US (Yellowstone).

           How to pronounce my name  Not sure how to pronounce Chinese names like Qi or Xu?  Check out this page.

Last modified: Oct 6, 2009