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. 2003 Jan;19(1):153-4.
doi: 10.1093/bioinformatics/19.1.153.

An integrated genetic data environment (GDE)-based LINUX interface for analysis of HIV-1 and other microbial sequences

T De Oliveira  1 , R Miller, M Tarin, S Cassol
Affiliations

An integrated genetic data environment (GDE)-based LINUX interface for analysis of HIV-1 and other microbial sequences

T De Oliveira et al. Bioinformatics. 2003 Jan.

Abstract

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).

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