| SNPman: a program for genotype calling using run data from TaqMan allelic discrimination. | |
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MedLine Citation:
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PMID: 21697130 Owner: NLM Status: Publisher |
Abstract/OtherAbstract:
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SUMMARY: The SNPman program calls the genotypes of single nucleotide polymorphisms (SNP) from TaqMan allelic discrimination assays. It utilizes the fluorescence data collected over the whole PCR run, rather than relying on the end-point fluorescence measurements that is the basis of the genotype calling process in most software solutions sold with the real-time instruments. This inspection of run data facilitates genotype calls in difficult sample sets, especially in those containing various concentrations of DNA or inhibitors, as indicated by results of a reanalysis of 3738 genotyping samples. The program works with data from three different widely used PCR instruments. AVAILABILITY: The compiled program is available online at http://sourceforge.net/projects/snpman/files/, along with its user documentation and demonstration data files. It is free of charge for non-commercial users. CONTACT: Ondrej.Cinek@Lfmotol.cuni.cz SUPPLEMENTARY INFORMATION: A supplementary figure is available at Bioinformatics online. |
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Authors:
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Martin Konopac; Petra Dusatkova; Ondrej Cinek |
Publication Detail:
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Type: JOURNAL ARTICLE Date: 2011-6-22 |
Journal Detail:
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Title: Bioinformatics (Oxford, England) Volume: - ISSN: 1367-4811 ISO Abbreviation: - Publication Date: 2011 Jun |
Date Detail:
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Created Date: 2011-6-23 Completed Date: - Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 9808944 Medline TA: Bioinformatics Country: - |
Other Details:
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Languages: ENG Pagination: - Citation Subset: - |
Affiliation:
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Faculty of Biomedical Engineering, Czech Technical University in Prague, Kladno, Department of Pediatrics, 2nd Faculty of Medicine, Charles University in Prague, V Uvalu 84, CZ-15006 Prague, and University Hospital Motol, CZ-15006 Prague, The Czech Republic. |
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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