Pyrobayes: an improved base caller for SNP discovery in pyrosequences
- 13 January 2008
- journal article
- Published by Springer Nature in Nature Methods
- Vol. 5 (2) , 179-181
- https://doi.org/10.1038/nmeth.1172
Abstract
Previously reported applications of the 454 Life Sciences pyrosequencing technology have relied on deep sequence coverage for accurate polymorphism discovery because of frequent insertion and deletion sequence errors. Here we report a new base calling program, Pyrobayes, for pyrosequencing reads. Pyrobayes permits accurate single-nucleotide polymorphism (SNP) calling in resequencing applications, even in shallow read coverage, primarily because it produces more confident base calls than the native base calling program.Keywords
This publication has 10 references indexed in Scilit:
- Primer-site SNPs mask mutationsNature Methods, 2007
- Sensitive mutation detection in heterogeneous cancer specimens by massively parallel picoliter reactor sequencingNature Medicine, 2006
- A germline-specific class of small RNAs binds mammalian Piwi proteinsNature, 2006
- Comprehensive mutation identification in an evolved bacterial cooperator and its cheating ancestorProceedings of the National Academy of Sciences, 2006
- Genome sequencing in microfabricated high-density picolitre reactorsNature, 2005
- Single Nucleotide Polymorphism Markers for Genetic Mapping in Drosophila melanogasterGenome Research, 2001
- A general approach to single-nucleotide polymorphism discoveryNature Genetics, 1999
- Base-Calling of Automated Sequencer Traces UsingPhred. I. Accuracy AssessmentGenome Research, 1998
- Base-Calling of Automated Sequencer Traces Using Phred. II. Error ProbabilitiesGenome Research, 1998
- Genomic mapping by fingerprinting random clones: A mathematical analysisGenomics, 1988