Research & Skills

Background: Computational Biology, Bioinformatics, Molecular Biophysics,  Statistical Mechanics, Physical Chemistry, Chemical Physics.

Hands-on expertise:
 
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.

Data Analysis: Analysis of Next Generation Sequencing Omics Data, Algorithm Development, Implementation of Bioinformatics Pipelines & Software, Statistical Analysis, Machine Learning, 
Network & Pathway Analysis.

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


      Applications:

      • NGS Data Manipulation & Analysis: GATK, Samtools, Bedtools, Picard
      • Gene Expression, Transcriptome Assembly, Pathway Analysis: Cufflinks, HTSeq, DESeq2, GSEA, WGCNA
      • Mapping: BWA, STAR, Bowtie, Tophat
      • Machine Learning: PCA, NMF, Clustering, Regression etc.
      • Network Analysis: Cytoscape, GeneMania
      • Molecular Simulation &Visualization: Gromacs, Campari, VMD, Pymol
      • Computational Chemistry: GAMESS
      • Software Development: Docker, github; Cloud computing: AWS
      • Operating Systems: Linux, MS-Windows, Mac
      • Graphics Editing: Adobe Photoshop & Illustrator