Photo of Guiyuan Lei

Dr Guiyuan Lei
University of Newcastle
Newcastle upon Tyne, United Kingdom

Calibayes CISBAN

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Research

Research Interests

Experiences

Publications

• Major Programs implemented in C/C++ and R

    Computational Biology:

  1. Identify significantly differential gene expression using Bioconductor (in R)
  2. Local Structure Repair for hill climbing search for the best Bayesian network (in C++)
  3. Combine prior knowledge (canalyzing function) into search for dynamic Bayesian networks (together with Dr. Jose M. Peņa)
  4. Gene finding program using EM algorithms to decide the coding and non-coding border

    5. Monte Carlo and Quasi-Monte Carlo:

  5. High dimension Quasi-random sequences (Sobol's, Halton, etc.) generator
  6. Parallel Quasi-Monte Carlo integration algorithm
  7. Adaptive Quasi-Monte Carlo global optimization for high dimension problem

    8. Application of adaptive quasi-Monte Carlo optimization:

  8. Solve the inverse problem of light transport in tissue by using adaptive quasi-Monte Carlo optimization method
  9. A prediction module (C++ language) to predict the consumption of electric power by using Genetic Programming (GP) algorithms to optimize differential equations, adaptive quasi-Monte Carlo optimization inbedded to optimze the coefficient in the equations.

• Experiences

Nov. 2005 - Present Microarry data analysis including pre-process data, identify significantly differential expression and explorary analysis. Bayesian inference the parameters and structure of biochemical network models from experimental data. CISBAN, Newcastle general hospital, Newcastle University, UK.
Aug. 2003 - Aug. 2005 Working on project of inverse engineering gene network. Dept. of physics, Linkoping University, Sweden.
Feb. 2003 - Mar. 2003 Solve the inverse problem of light transport in tissue by using adaptive quasi-Monte Carlo optimization method, it is efficient for one-layered tissue.
Sept. 2001 - Mar. 2002 Took the course "Introduction to Bioinformatics", and joined in gene finding programming project using EM algorithms to decide the coding and non-coding border. My responsibility focus on three aspects:
(1) Verify if there is global extreme problem of EM algorithms
(2) Look for the fitness function for optimization
(3) Develop optimization algorithms.
Sept. 2001 - Feb. 2002 Teaching Assistant of Advance Mathematics with Chu Kochen College, Zhejiang University. In charge of exercise course and dealing with the student's assignments
Aug. 2001 - Oct. 2001 Programming a comercial software (C++ language) to predict the consumption of electric power. I used Genetic Programming (GP) algorithms to optimize differential equations that consist with the history data, then use Euler method to predict the consumption of power in the future. The result of the module is more excellent than that of the other predict methods such as neural network.

• Conferences & Workshops

October 9-13, 2004 5th International Conference on Systems Biology, Heidelberg, Germany
June 3-6, 2004 6th annual bioinformatics conference, international bioinformatics meeting in Scandinavia, Link?ping, Sweden
Dec. 15-16,2003 Workshop on cellular networks. Norrkoping, Sweden
Nov. 13 -15, 2003 Workshop on Mathematical Aspects of Systems Biology. Gothenburg, Sweden
Oct. 24 - 25, 2003 The 4th Swedish Bioinformatics Workshop, Linkoping, Sweden
Oct. 16 - 23, 2003 Inverse problems: Computational Methods and Emerging Applications. University of California, Los Angeles, United States of American.
Sept. 10, 2003 Biomedical research & Entrepreneurship --- from a regional and international perspective. Linkoping, Sweden
Aug.27 - Aug.30, 2001 International Symposium on Genomics & Biotechnology, Hangzhou, China
July - Aug. 2001 Summer school on applied mathematics in bioinformatics
Mar. 2000 Workshop on parallel programming(MPI and OpenMP)

 

Last modified:
17 July, 2008