Title: An integrated genetic data environment (GDE)-based LINUX interface for analysis of HIV-1 and other microbial sequences
Authors: De Oliveira T, Miller R, Tarin M, Cassol S.
Journal: Bioinformatics,19(1):153-4 (2003)
MOTIVATION: Sequence databases encode a wealth of information needed to develop improved vaccination and treatment strategies for the control of HIV and other important pathogens. To facilitate effective utilization of these datasets, we developed a user-friendly GDE-based LINUX interface that reduces input/output file formatting.
DESIGN AND RESULTS: GDE was adapted to the Linux operating system, bioinformatics tools were integrated with microbe-specific databases, and up-to-date GDE menus were developed for several clinically important viral, bacterial and parasitic genomes. Each microbial interface was designed for local access and contains Genbank, BLAST-formatted and phylogenetic databases.
AVAILABILITY: GDE-Linux is available for research purposes by direct application to the corresponding author. Application-specific menus and support files can be downloaded from (http://www.bioafrica.net)
Citation: De Oliveira T, Miller R, Tarin M, Cassol S. An integrated genetic data environment (GDE)-based LINUX interface for analysis of HIV-1 and other microbial sequences Bioinformatics,19(1):153-4 (2003).
KRISP has been created by the coordinated effort of the University of KwaZulu-Natal (UKZN), the Technology Innovation Agency (TIA) and the South African Medical Research Countil (SAMRC).