SBAL: a practical tool to generate and edit structure-based amino acid sequence alignments

Wang, Conan K., Broder, Ursula, Weeratunga, Saroja K., Gasser, Robin B., Loukas, Alex, and Hofmann, Andreas (2012) SBAL: a practical tool to generate and edit structure-based amino acid sequence alignments. Bioinformatics, 28 (7). pp. 1026-1027.

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Abstract

Both alignment generation and visualization are important processes for producing biologically meaningful sequence alignments. Computational tools that combine reliable, automated and semi-automated approaches to produce secondary structure-based alignments with an appropriate visualization of the results are rare. We have developed SBAL, a tool to generate and edit secondary structure-based sequence alignments. It is easy to install and provides a user-friendly interface. Sequence alignments are displayed, with secondary structure assignments mapped to their corresponding regions in the sequence by using a simple colour scheme. The algorithm implemented for automated and semi-automated secondary structure-based alignment calculations shows a comparable performance to existing software.

Item ID: 22165
Item Type: Article (Short Note)
ISSN: 1367-4811
Funders: Australian Research Council (ARC), National Health and Medical Research Council (NHMRC)
Date Deposited: 28 Jun 2012 16:01
FoR Codes: 06 BIOLOGICAL SCIENCES > 0601 Biochemistry and Cell Biology > 060101 Analytical Biochemistry @ 50%
06 BIOLOGICAL SCIENCES > 0601 Biochemistry and Cell Biology > 060102 Bioinformatics @ 50%
SEO Codes: 97 EXPANDING KNOWLEDGE > 970103 Expanding Knowledge in the Chemical Sciences @ 50%
97 EXPANDING KNOWLEDGE > 970106 Expanding Knowledge in the Biological Sciences @ 50%
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