Rapid assignment of nucleotide sequence data to allele types for multi-locus sequence analysis (MLSA) of bacteria using an adapted database and modified alignment program
Rapid assignment of nucleotide sequence data to allele types for multi-locus sequence analysis (MLSA) of bacteria using an adapted database and modified alignment program
A novel database and modified alignment program is described which provides a fast and accurate procedure for assigning nucleotide sequences to allele types for multi-locus sequence analysis (MLSA). The database has between 40 and 160 alleles per organism including Neisseria meningitidis, Streptococcus pneumoniae, Staphylococcus aureus and Haemophilus influenzae. The database directly compares the query nucleotide sequence against all alleles within the database and this system reduces the time taken for the analysis of nucleotide sequence data and assignment of alleles for subsequent sequence analysis.
Alleles, Bacteria/classification, Bacterial Typing Techniques, Base Sequence, Computational Biology, Databases, Nucleic Acid, Humans, Molecular Sequence Data, Sequence Alignment, Sequence Analysis, DNA, Software, Time Factors
515-7
Diggle, M A
d739c25b-e038-4a9a-850d-2e2fd6ff4a4f
Clarke, S C
f7d7f7a2-4b1f-4b36-883a-0f967e73fb17
November 2002
Diggle, M A
d739c25b-e038-4a9a-850d-2e2fd6ff4a4f
Clarke, S C
f7d7f7a2-4b1f-4b36-883a-0f967e73fb17
Diggle, M A and Clarke, S C
(2002)
Rapid assignment of nucleotide sequence data to allele types for multi-locus sequence analysis (MLSA) of bacteria using an adapted database and modified alignment program.
Journal of Molecular Microbiology and Biotechnology, 4 (6), .
Abstract
A novel database and modified alignment program is described which provides a fast and accurate procedure for assigning nucleotide sequences to allele types for multi-locus sequence analysis (MLSA). The database has between 40 and 160 alleles per organism including Neisseria meningitidis, Streptococcus pneumoniae, Staphylococcus aureus and Haemophilus influenzae. The database directly compares the query nucleotide sequence against all alleles within the database and this system reduces the time taken for the analysis of nucleotide sequence data and assignment of alleles for subsequent sequence analysis.
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Published date: November 2002
Keywords:
Alleles, Bacteria/classification, Bacterial Typing Techniques, Base Sequence, Computational Biology, Databases, Nucleic Acid, Humans, Molecular Sequence Data, Sequence Alignment, Sequence Analysis, DNA, Software, Time Factors
Identifiers
Local EPrints ID: 453835
URI: http://eprints.soton.ac.uk/id/eprint/453835
ISSN: 1464-1801
PURE UUID: 45ad3c27-c2ba-446e-83a7-264aeb7a38c9
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Date deposited: 25 Jan 2022 17:30
Last modified: 26 Jan 2022 02:39
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Author:
M A Diggle
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