Bio Saga Blog - A Chronicle of Life Sciences & Informatics

It is more user friendly and easy to use for those new to Linux. Contains all the necessary Bioinformatics tools. BioPuppy contains extensive help files for ALL its programs and Bioinformatcis tools with screen shot.   Sequence Analysis tools such as: Genewise, Muscle, Sigma etc are already embedded.   Structure Prediction tools such as: Phylogibbs, Mfold, FastLink are present.   Protein Structure Analysis Tools like Rasmol and Phylogenetic Analysis Tools such as FastDNA and Philip are already embedded. Most Importantly Molecular Dynamics tools such as GROMACS, Statistical Analysis Tools such as R and BioConductor are pre-loaded. It also contains BLAST, EMBOSS, Biofox and other online tools also. Install BioPuppy and experience all these features.   Welcome to  BioPuppy  Linux  

Oseltamivir (Tamiflu) is currently the frontline antiviral drug employed to fight the flu virus in infected individuals by inhibiting neuraminidase, a flu protein responsible for the release of newly synthesized virions. However, oseltamivir resistance has become a critical problem due to rapid mutation of the flu virus. Unfortunately, how mutations actually confer drug resistance is not well understood. In this study, we employ molecular dynamics (MD) and steered molecular dynamics (SMD) simulations, as well as graphics processing unit (GPU)-accelerated electrostatic mapping, to uncover the mechanism behind point mutation induced oseltamivir-resistance in both H5N1 “avian” and H1N1pdm “swine” flu N1-subtype neuraminidases. The simulations reveal an electrostatic binding funnel that plays a key role in directing oseltamivir into and out of its binding site on N1 neuraminidase. The binding pathway for oseltamivir suggests how mutations disrupt drug binding and how new drugs may circumve...