Wojciech K. Kasprzak
( pr. Voytek Casp-shack )

Bioinformatics Analyst Programmer

Basic Science Program
Leidos Biomedical Research, Inc., ( Leidos )
Frederick National Laboratory for Cancer Research

Utilizing resources of the
Advanced Biomedical Computing Center: ABCC

In support of:
Center for Cancer Research: Basic Research Laboratory
RNA Structure Group
National Cancer Institute at Frederick
Building 469, Rm 226
Frederick, MD 21702
USA

Phone: 301 846 5537
Fax: 301 846 5598
e-mail:kasprzaw@mail.nih.gov


Professional Society memberships: Biophysical Society, The RNA Society

Reseach interests and ongoing projects:
  • Design and characterization of RNA-based nano-scale structures and other RNA 3D modeling - see the featured story in CCR Connections.

  • RNA-structure dynamics explored with full atom, explicit solvent Molecular Dynamics and coarse-grained methods, such as the Anisotropic Network Model, a form of Elastic Network Model.

  • RNA Junction Database - a databas of 3D RNA junctions extracted from PDB entries for the purpose of RNA nanostructure design. All the junctions have been subjected to energy minimization in Amber (reaching nearest local minimum), and their RMSD relative to the initial structure and the minimized 3D coordinates are also available.

  • Utilization of our Massively Parallel Genetic Algorithm MPGAfold to determine multiple functional structures (states) of RNA sequences, such as those we have shown for the HDV Type III (with differences for the strains from Ecuador and Peru), HIV 5'UTR, hok/sok and pstvd systems (see publications).

  • StructureLab - a heterogeneous computing environment workbench for multifaceted RNA secondary structure prediction and analysis. You can download binaries of this software package for PC/Linux and SGI/Irix platforms.


Here is a PubMed search of my publications and the author-curated list of publications, presentations and attended conferences.

Frederick, Maryland, USA:

Last revision to this page: July 7, 2014 by kasprzaw@mail.nih.gov