• Research Experiences
➢ Molecular Modeling and Simulation: Protein Structure Modeling, In Silico Protein Design, Molecular Dynamics, Molecular structural simulation applied Monte Carlo method, Molecular docking, Molecular simulation by applied Monte Carlo Method, QSAR using machine learning method.
• GPCR modeling, Kinase inhibitor profiling
• Development of automated protein design program using Visual C++ and fortran
• Protein structure modeling (DCAF1) and simulation
• Hepatotoxicity prediction system and metabolite prediction system
➢ Biological Sequence Analysis: Phylogenetic Model using Bayesian Inference (using Markov Chain Monte Carlo), Motif search, Gene Expression Data analysis(gene set and pathway), RNA-seq Analysis, Connectivity Map analysis for Drug Repositioning
• Toxicogenomic data analysis
• EPA ToxCast data analysis
• Connectivity Map analysis for Drug Repositioning
➢ Mass Spectrometry: Processing FTICR raw data, De Novo Protein Sequencing, Natural Product Identification, Metabolomic analysis using mass spectrometry profiling
• Development FTICR raw data processing program for de novo protein sequencing using Visual C++,.Net framework and MySQL
• Development natural product identification system using Java, Python, Pipeline Pilot and Oracle database
• Skills
➢ Software:
• Bioinformatics: R, SAS, Mr.Bayes, Pipeline Pilot, RapidMiner, Ingenuity pathway analysis (IPA), Gene Set Enrichment Analysis (GSEA)
• Molecular modeling: Discovery Studio, Sybyl, Pymol, Modeler and CCP4 package
• Molecular dynamics: Charmm, Amber, Gromacs, NAMD
• Mass spectrometer program: openMS, Mascot, XCMS
➢ Programming
• Language: Visual C++, Fortran, Perl, Python (Scipy and Numpy), Java
• UML, Object-oriented analysis, Test-Driven Development
• Basic SQL query for MySQL and Oracle database
• Linux system administration
➢ Statistical Method
• Machine learning method: PLS, MLR, ANN, SVM
• Stochastic process and Bayesian inference (Markov Chain Monte Carlo Method)