This page contains useful resources for both Computational and Experimental research conducted in our lab. Enjoy!

  1. All-in-1 bioinformatics tools: ExPASy
  2. Systems biology: Flux Balance Analysis
  3. DNA/Plasmid analysis: ApE
  4. Protein sequence alignment and analysis: ClustalX, STRAP, MEGA, WebLogo, BlockLogo, pLogo, PhyloBot
  5. Protein 3D structure modeling: Rosetta, ROSIE
  6. Protein structure display: PymolVMD, Chimera, BioBlender
  7. Protein animations: Molecular Flipbook
  8. Reference Manager: Papers, EndNote
  9. Molecular dynamics: NAMD, Gromacs, Amber, MDWeb
  10. Small-molecule docking: DOCK, AutoDock, AutoT&T
  11. Small-molecule database: Specs, ZINC, DrugBank, TCM, Asinex, Selleckchem, Prestwick, Ambinter, Enamine
  12. Format conversion: I_Interpreter
  13. Ligand-Protein analysis: LigPlot, PLIP
  14. Chem & bio informatics: Schrodinger
  15. Scientific plotting & picture processing: Prism, Inkscape, EazyDraw, R, Matlab, GraphvizImageJ, Grace (Xmgrace)
  16. Add H2O molecules to the interior space of proteins: DOWSER
  17. Predict the non-linear distance between two residues over the protein surface: Xwalk
  18. Linux tutorials:
  19. Python tutorials:
  20. C++:
  21. Perl:
  22. Pymol tips & tricks

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