LEI YANG, Ph.D.

IOWA STATE UNIVERSITY
Ph.D. in Bioinformatics and Computational Biology, 2008
M.S. in Statistics, 2005

CHINESE UNIVERSITY OF HONG KONG
M.Phil. in Biochemistry, 2001

UNIVERSITY OF SCIENCE AND TECHNOLOGY OF CHINA
B.S. in Biology, 1998
B.E. in Economics and Management, 1998
PIONEER HI-BRED INTERNATIONAL, DUPONT, 2010-Present
Senior Research Associate in Global Marker Technologies
--- Developed and maintained a set of web tools to perform various analysis (e.g. data manipulation, marker selection, BLAST, NGS analysis, LD analysis, marker visualization)
     in support of the whole group of Marker Development and Discovery
--- Performed ad-hoc data analysis as needed, and developed and implemented custom solutions to facilitate efficient marker development processes and workflows
--- Met regularly with development scientists to review project portfolio, evaluate project priorities and assisted in evaluation of new ideas to determine resource requirements
--- Examined marker development processes and workflows to identify deficiencies and bottlenecks

MONSANTO COMPANY, 2008-2010
Statistical Scientist in Crop Biometrics
--- Performed statistical analysis for various molecular breeding and biotechnological projects such as QTL analysis and protein expression profile analysis in Crop Biometrics
--- Supported spatial and meta analysis for drought tolerance trait for trait integration (TI)
--- Developed Oracle integrated visualization and analysis tools for SNP marker analysis
--- Developed R packages with customized functions for biologists and breeders

IOWA STATE UNIVERSITY, 2002-2008
Research Assistant in Bioinformatics and Biological Statistics
--- Applied statistical methods and computational simulations to study protein sequence, structure, and associated functional motions
--- Developed bioinformatics tools and R packages for various research projects
--- Extensively experienced in high-dimensional data manipulation and analysis

CHINESE UNIVERSITY OF HONG KONG, 1999-2001
Research Assistant in Biochemistry
--- Conducted molecular cloning and gene expression study of drug-induced diseases
--- Proficient in molecular cloning, transgenic techniques, genotyping, PCR, differential display, microarray analysis and associated statistical analysis
Editor, Journal of Bioinformatics and Sequence Analysis
Member of Editorial Team, Journal of Computational Biology and Bioinformatics Research
Member of Editorial Team, Journal of Biophysics and Structural Biology
Elected Full Member, Sigma Xi, The Scientific Research Society, 2008
Elected Fellow, Royal Statistical Society, 2008
Frequent Invited Reviewer for various journals, conferences and scientific foundations including Proteins: Structure, Function and Bioinformatics, Polymer,Cancer Informatics, Bioinformatics and Biological Insights and National Science Foundation (NSF)
Solid knowledge of bioinformatics and advanced statistics such as modeling, exploratory methods and machine learning
Proficient in programming using R/S-Plus and MATLAB, with experience of other languages such as PERL and C++
Skilled user of various R packages such as RApache, R/QTL, RMySQL, RODBC and R/Bioconductor
Significant experience of web application development, database design and SQL query (Oracle, MySQL, SQL Server and Sybase)
Excellent skills of large-data manipulation, analysis and visualization
Working under multiple platforms such as Windows, Unix, Linux and HPC Cluster [1] Yang L, Song G and Jernigan RL. Protein Elastic Network Models and the Ranges of Cooperativity (2009), Proc. Natl. Acad. Sci. USA, 106:12347-12352. [Abstract] [PDF]
[2] Feng Y, Yang L, Kloczkowski A and Jernigan RL. The Energy Profiles of Atomic Conformational Transition Intermediates of Adenylate Kinase (2009), Proteins: Structure,
     Function and Bioinformatics, 77: 551-558. [Abstract] [PDF]
[3] Yang L, Song G and Jernigan RL. Comparisons of Experimental and Computed Protein Anisotropic Temperature Factors (2009), Proteins: Structure, Function and
     Bioinformatics, 76:164-175. [Abstract] [PDF]
[4] Kloczkowski A, Jernigan RL, Wu Z, Song G, Yang L, Kolinski A and Pokarowski P, Distance Matrix-Based Approach to Protein Structure Prediction (2009), J. Struct.
     Funct. Genomics, 10:67-81. [Abstract] [PDF]
[5] Yang L, Song G, Carriquiry A and Jernigan RL. Close Correspondence between the Motions from Principal Component Analysis of Multiple HIV-1 Protease Structures and
     Elastic Network Modes (2008), Structure, 16: 321-330. [Abstract] [PDF][Report]
[6] Yang L, Song G and Jernigan RL. How Well Can We Understand Large-Scale Protein Motions Using Normal Modes from Elastic Network Models? (2007), Biophys. J., 93:
     920-929. [Abstract] [PDF]
[7] Avasarala S, Yang L, Sun Y, Leung AWC, Chan WY, Cheung WT and Lee SST. A Temporal Study on the Histopathological, Biochemical and Molecular Responses of
     CCl₄-Induced Hepatotoxicity in Cyp2e1-Null Mice (2006), Toxicology, 228: 310-322.
     [Abstract] [PDF]
[8] Yang L, Song G and Jernigan RL. Comparison of Experimental and Computed Protein Anisotropic Temperature Factors, in Proceedings of 2007 IEEE International
     Conference on Bioinformatics and Biomedicine Workshops, pp 89-96, November 2007, Fremont, CA, USA. [Abstract][PDF]
[9] Jernigan RL, Yang L, Kurkcuoglu O, Song G and Doruker P. Elastic Network Models of Coarse-Grained Proteins are Effective for Studying the Structural Control Exerted
     over their Dynamics in Coarse-Graining of Condensed Phase and Biomolecular Systems, Ed. Voth G, Taylor and Francis Group, September, 2008. [Link]
[1] Kloczkowski A, Jernigan RL, Wu Z, Song G, Yang L, Kolinski A and Pokarowski P. Distance Matrix-Based Approach to Protein Structure Prediction, 2008 NIGMS Protein
     Structure Initiative Bottlenecks Workshop, April 2008, National Institutes of Health (NIH), Bethesda, MD, USA.
[2] Yang L, Song G and Jernigan RL. How Well Can We Understand Large-Scale Protein Motions Using Elastic Network Modes? The Joint Meeting of the Biophysical Society
     52nd Annual Meeting & 16th International Biophysics Congress, February 2008, Long Beach, CA, USA.
[3] Yang L, Song G and Jernigan RL. Comparison of Experimental and Computed Protein Anisotropic Temperature Factors, Computational Structural Bioinformatics Workshop
     (CSBW) on IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2007), November 2007, San Jose, CA, USA.
[4] Yang L, You L, Song G and Jernigan RL. ENM: An R Package for the Computational Modeling and Analysis of Protein Dynamics Using Elastic Network Models,
      useR! 2007 - The R User Conference, August 2007, Ames, IA, USA.
[5] Yang L, Song G, Carriquiry A and Jernigan RL. Identification of Essential Protein Motions from Principal Component Analysis of Multiple HIV-1 Protease Structures and
     Agreement with Elastic Network Modes, The 20th Annual Symposium of The Protein Society & 20th Anniversary Celebration, August 2006, San Diego, CA, USA.
[6] Yang L, Song G, Carriquiry A and Jernigan RL. Identifying of Essential Protein Motions from Principal Component Analysis of Multiple HIV-1 Protease Structures and
     Agreement with Elastic Network Modes, The 32nd Steenbock Symposium - Dynamics of Proteins and Macromolecular Assemblies, May 2006, Madison, WI, USA.
[7] Yang L, Song G, Zhao X, Carriquiry A and Jernigan RL. Motion Analysis of HIV-1 Protease by Anisotropic Network Model and Principal Component Analysis, The 14th
     Growth Factors and Signal Transduction Symposium - Integration of Structural and Functional Genomics, September 2005, Ames, IA, USA.
[8] Yang L, Song G, Zhao X, Carriquiry A and Jernigan RL. Motion Analysis of HIV-1 Protease by Anisotropic Network Model and Principal Component Analysis, The 5th
     Annual Joint Bioinformatics Workshop between UI and ISU, July 2005, Iowa City, IA, USA.
[9] Yang L, Tian L and Lee SST. Identification of CYP2E1 Dependent Genes Involved in Carbon Tetrachloride (CCl4) and Acetaminophen (APAP) Induced Hepatotoxicity,
      The 13th International Symposium on Microsomes and Drug Oxidations (MDO2000), July 2000, Stresa, Italy.
[10] Tian L, Yang L, Chan WY, Cheung WT and Lee SST. Differential Display Analysis of Peroxisome Proliferator-Activated Receptor Alpha (PPARa) Dependent Genes
       Involved in the Cellular Fasting Response, The 13th International Symposium on Microsomes and Drug Oxidations (MDO2000), July 2000, Stresa, Italy.
IOWA STATE UNIVERSITY
Guest Instructor for Protein Dynamics in Computational Biochemistry (BBMB541), Fall 2007
Teaching Assistant, Survey of Biochemistry (BBMB301), Fall 2006
Teaching Assistant, Survey of Biochemistry (BBMB301), Spring 2006

CHINESE UNIVERSITY OF HONG KONG
Teaching Assistant and Instructor for Transgenic Technology in Molecular Biotechnology (MBT4031), Spring 2001
Teaching Assistant and Instructor for Transgenic Technology in Molecular Biotechnology (MBT4031), Spring 2000
Teaching Assistant, Environmental Science (ENS4251), Spring 2000
Alien of Extraordinary Ability (EB-1A), USCIS, 2010
Professional Advancement Grant (PAG), Iowa State University, 2007
Professional Advancement Grant (PAG), Iowa State University, 2006
Graduate Research Assistantship, Iowa State University, 2002-2008
Premium for Academic Excellence (PACE) Award, Iowa State University, 2002
Postgraduate Studentship, Chinese University of Hong Kong, 1999-2001
China Mathematical Olympiad (CMO), 2nd Prize (Silver Medal) in Province, 1992
China Physical Olympiad (CPO), 3rd Prize (Bronze Medal) in Province, 1992