Abstract
HIV Drug Resistance testing has been established as a routine test in several cases. Estimation of genotypic resistance is a laborious task consisting of experimental procedure and complicated algorithmic interpretation of mutational pattern (sequence data). Since the sequencing procedure is not error free, it is often necessary to proceed into quality checking and manual editing of the raw data (chromatograms). This paper presents the design and development of a grid-based platform that assists the storage and analysis of HIV nucleotide sequences both for clinical practice and research purposes. Modular software components were implemented for sequence uploading, quality verification, mutation identification, genotypic resistance interpretation, phylogenetic analysis, multiple-sequence alignment and sophisticated mutation querying. Moreover these services have been exported as web services in order to provide a high layer of abstraction and enhanced collaboration among researchers. The platform has been validated and tested with more than 500 HIV sequences.
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References
de Knikker, R., Guo1, Y., Li1, J., Kwan, A., Yip, K., Cheung, D., Cheung, K.: A web services choreography scenario for interoperating bioinformatics applications. BMC Bioinformatics 5, 25 (2004)
W3C, Web Services Glossary, W3C Working Group Note (February 11, 2004), http://www.w3.org/TR/ws-gloss/
W3C, Web Services Architecture, W3C Working Group Note, (February 11, 2004), http://www.w3.org/TR/ws-arch/
Basic Profile of the Web Services Interoperability model, http://www.wsi.org/Profiles/Basic/2003-05/BasicProfile-1.0-WGAD.htm
Biogrid Project, http://biogrid.icm.edu.pl
Leuven Genotypic Resistance Algorithm , www.kuleuven.be/rega/cev/pdf/ResistanceAlgorithm6_22.pdf
Phylip program suite, http://evolution.genetics.washington.edu/phylip.html
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© 2005 Springer-Verlag Berlin Heidelberg
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Gouvas, P. et al. (2005). Web Service-Enabled Grid-Based Platform for Drug Resistance Management. In: Bozanis, P., Houstis, E.N. (eds) Advances in Informatics. PCI 2005. Lecture Notes in Computer Science, vol 3746. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11573036_44
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DOI: https://doi.org/10.1007/11573036_44
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-29673-7
Online ISBN: 978-3-540-32091-3
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