An integrated genetic data environment (GDE)-based LINUX interface for analysis of HIV-1 and other microbial sequences. Bioinformatics, 19(1): 153-4 (2003).

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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)

Journal Impact Factor (I.F.): 5.468
Number of citations (Google Scholar): 12

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)

Download: Full text paper

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).


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KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), K-RITH Tower Building, Nelson R Mandela School of Medicine, UKZN

Contact: Prof. Tulio de Oliveira, Tel: +27 31 260 4898, Email: tuliodna@gmail.com & deoliveira@ukzn.ac.za

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