Research & Skills

Hands-on expertise:

Data Analysis: Analysis of Next Generation Sequencing Omics Data, Machine Learning & Statistical Analysis on Multimodal Data, Algorithm Development, Implementation of Bioinformatics Pipelines & Software

Modeling: Molecular Simulations (Monte Carlo and Molecular Dynamics), Stochastic Modeling (Markov Processes), Protein Structure Prediction, de novo Protein Design, Statistical Modeling of in vitro/ex vivo data.

Computer Languages:

• Programming: Python, Fortran90
• Scripting: Shell-scripting, awk, Tcl
• Statistical: Bioconductor/R, Matlab
• DBMS: MongoDB
• Markup: LaTeX, bibTeX, Html.

Applications:

• Machine Learning: Bayesian Predictive & Causal Modeling, Ensemble Learning, Clustering, Regression, GLM, SVM etc.
• NGS Data Manipulation & Analysis: GATK, Samtools, Bedtools, Picard
• Gene Expression, Transcriptome Assembly, Pathway Analysis: Cufflinks, HTSeq, DESeq2, GSEA, WGCNA
• Mapping: BWA, STAR, Bowtie, Tophat
• Network Analysis: Cytoscape, iGraph
• Molecular Simulation &Visualization: Gromacs, Campari, VMD, Pymol
• Computational Chemistry: GAMESS
• Software Development: Docker, github; Cloud computing: AWS
• Web Application: R-Shiny/Markdown;
• Operating Systems: Linux, MS-Windows, Mac
• Graphics Editing: Adobe Photoshop & Illustrator