| SNPServer: a real-time SNP discovery tool. | |
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MedLine Citation:
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PMID: 15980519 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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SNPServer is a real-time flexible tool for the discovery of SNPs (single nucleotide polymorphisms) within DNA sequence data. The program uses BLAST, to identify related sequences, and CAP3, to cluster and align these sequences. The alignments are parsed to the SNP discovery software autoSNP, a program that detects SNPs and insertion/deletion polymorphisms (indels). Alternatively, lists of related sequences or pre-assembled sequences may be entered for SNP discovery. SNPServer and autoSNP use redundancy to differentiate between candidate SNPs and sequence errors. For each candidate SNP, two measures of confidence are calculated, the redundancy of the polymorphism at a SNP locus and the co-segregation of the candidate SNP with other SNPs in the alignment. SNPServer is available at http://hornbill.cspp.latrobe.edu.au/snpdiscovery.html. |
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Authors:
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David Savage; Jacqueline Batley; Tim Erwin; Erica Logan; Christopher G Love; Geraldine A C Lim; Emmanuel Mongin; Gary Barker; German C Spangenberg; David Edwards |
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Publication Detail:
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Type: Journal Article; Research Support, Non-U.S. Gov't |
Journal Detail:
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Title: Nucleic acids research Volume: 33 ISSN: 1362-4962 ISO Abbreviation: Nucleic Acids Res. Publication Date: 2005 Jul |
Date Detail:
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Created Date: 2005-06-27 Completed Date: 2005-08-10 Revised Date: 2009-11-18 |
Medline Journal Info:
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Nlm Unique ID: 0411011 Medline TA: Nucleic Acids Res Country: England |
Other Details:
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Languages: eng Pagination: W493-5 Citation Subset: IM |
Affiliation:
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Plant Biotechnology Centre, La Trobe University, Bundoora 3086, Victoria, Australia. |
Export Citation:
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APA/MLA Format Download EndNote Download BibTex |
| MeSH Terms | |
Descriptor/Qualifier:
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Internet Polymorphism, Single Nucleotide* Sequence Alignment Sequence Analysis, DNA / methods* Software* Time Factors User-Computer Interface |
| Comments/Corrections | |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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