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Curriculum Vitae

Yu S. Huang

Biographical

Birthplace:: Shanghai, China
Citizenship:: China
E-mail:: yuhuang@usc.edu
URL:: http://www-scf.usc.edu/~yuhuang/
Work address:: 1050 Childs Way, RRI 324B, Los Angeles, CA 90089
Office Phone:: 213-821-2857

Education

1999-2003: B.S. Biological Sciences, Fudan University, Shanghai
2003-2009 (expected): Ph.D. Computational Biology and Bioinformatics, University of Southern California, Los Angeles, CA

Awards

1996: Third Award, Junior High School Physics Competition, Shanghai
1999: Third Award, National High School Mathematics Competition, China
1999-2003: People's Scholarship, Fudan University
2000: Third Award, Computer Programming Competition of Fudan University
2003-2008: College Graduate Merit Award, University of Southern California

Research Interests

: Understanding the genetic architecture of complex traits, specifically the gene-gene and gene-environment interaction aspects.
: Detection, population-genetic and association analysis of copy number variation in Arabidopsis thaliana.
: Gene Ontology and transcription factor family enrichment analysis of GWA study data sets to provide insight into the biological network of Arabidopsis thaliana.
: Developing IT infrastructure to handle large-scale data using state-of-the-art database and web technologies. Example: http://arabidopsis.usc.edu/
: Integrative functional analysis of expression data using graph theories.

Publications

Alexander Platt, Matthew Horton*, Yu S. Huang*, Yan Li*, Alison Anastasio, Ni Wayan Mulyati, Jon Ågren, Oliver Bossdorf, Diane Byers, Kathleen Donohue, Megan Dunning, Eric Holub, Andrew Hudson, Valerie Le Corre, Olivier Loudet, Fabrice Roux, Norman Warthmann, Detlef Weigel, Luz Rivero, Randy Scholl, Magnus Nordborg, Joy Bergelson, Justin O. Borevitz (2009): The Scale of Population Structure in Arabidopsis thaliana. Under review at Plos Genetics (*: equal contribution.)
Susanna Atwell*, Yu S. Huang*, Bjarni J. Vilhjalmsson*, Glenda Willems*, Matthew Horton, Yan Li, Dazhe Meng, Alexander Platt, Aaron Tarone, Tina T. Hu, Rong Jiang, N. Wayan Muliyati, Xu Zhang, Muhammad Ali Amer, Ivan Baxter, Benjamin Brachi, Joanne Chory, Caroline Dean, Marilyne Debieu, Juliette de Meaux, Joseph R. Ecker, Nathalie Faure, Joel M. Kniskern, Jonathan D. G. Jones, Todd Michael, Adnane Nemri, Fabrice Roux, David E. Salt, Chunlao Tang, Marco Todesco, M. Brian Traw, Detlef Weigel, Paul Marjoram, Justin Borevitz, Joy Bergelson, Magnus Nordborg (2009): Genome-wide association study of 107 phenotypes in a common set of Arabidopsis thaliana inbred lines. Under revision at Nature (*: equal contribution.)
Yu Huang*, Haifeng Li*, Haiyan Hu, Xifeng Yan, Michael S. Waterman, Haiyan Huang and Xianghong Jasmine Zhou (2007): Systematic discovery of functional modules and context-specific functional annotation of human genome. Bioinformatics (ISMB 2007) 23:i222-229. (*: equal contribution.)
Xifeng Yan*, Michael R. Mehan*, Yu Huang, Michael S. Waterman, Philip S. Yu and Xianghong Jasmine Zhou (2007): A graph-based approach to systematically reconstruct human transcriptional regulatory modules. Bioinformatics (ISMB 2007) 23:i577-586. (*: equal contribution.)
Fei Pan, Kiran Kamath, Kangyu Zhang, Sudip Pulapura, Avinash Achar, Juan Nunez-Iglesias, Yu Huang, Xifeng Yan, Jiawei Han, Haiyan Hu, Min Xu, Xianghong Jasmine Zhou (2006): Integrative Array Analyzer: A software package for integrative analysis of cross-platform and cross-species microarray data. Bioinfromatics 22(13):1665-7.
Haiyan Hu, Xifeng Yan, Yu Huang, Jiawei Han, Xianghong Jasmine Zhou (2005): Mining coherent dense subgraphs across massive biological networks for functional discovery. Bioinformatics (ISMB 2005) 21 Suppl 1:i213-21.

Talks Given

2009/01/13 Plant Sensing, Response and Adaptation to the Environment.: Keystone Symposium organized by Steve A. Kay and Joanne Chory at Big Sky, Montana, USA. How Can a priori Candidate Genes Help in Association Mapping of Arabidopsis thaliana.
2008/11/14 USC MCB Department Retreat at Laguna Beach, CA, USA: Initial Mapping of the Genetic Architecture of Flowering Time in Arabidopsis thaliana.
2006/06/30 Mathematical Aspects of Computational Biology.: MSRI Summer Graduate Workshop at Berkeley, CA, USA. Chosen to give http://www.msri.org/communications/vmath/VMathVideos/VideoInfo/2788/show_videothe final student talk (link): Finding the Longest Identity Sequence (vertebrate) and the Parametric Alignment of GCCTA vs CGAT.
2004/11/13 USC MCB Department Retreat at Laguna Beach, CA, USA: Large-Scale Functional Annotation - Frequent Subgraph Mining Approach.