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SNiPloid : A Utility to Exploit High-Throughput SNP Data Derived from RNA-Seq in Allopolyploid Species
Joint Authors
Combes, Marie-Christine
Lashermes, Philippe
Cenci, Alberto
Peralta, Marine
Dereeper, Alexis
Source
International Journal of Plant Genomics
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-6, 6 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-09-12
Country of Publication
Egypt
No. of Pages
6
Main Subjects
Abstract EN
High-throughput sequencing is a common approach to discover SNP variants, especially in plant species.
However, methods to analyze predicted SNPs are often optimized for diploid plant species whereas many crop species are allopolyploids and combine related but divergent subgenomes (homoeologous chromosome sets).
We created a software tool, SNiPloid, that exploits and interprets putative SNPs in the context of allopolyploidy by comparing SNPs from an allopolyploid with those obtained in its modern-day diploid progenitors.
SNiPloid can compare SNPs obtained from a sample to estimate the subgenome contribution to the transcriptome or SNPs obtained from two polyploid accessions to search for SNP divergence.
American Psychological Association (APA)
Peralta, Marine& Combes, Marie-Christine& Cenci, Alberto& Lashermes, Philippe& Dereeper, Alexis. 2013. SNiPloid : A Utility to Exploit High-Throughput SNP Data Derived from RNA-Seq in Allopolyploid Species. International Journal of Plant Genomics،Vol. 2013, no. 2013, pp.1-6.
https://search.emarefa.net/detail/BIM-505686
Modern Language Association (MLA)
Peralta, Marine…[et al.]. SNiPloid : A Utility to Exploit High-Throughput SNP Data Derived from RNA-Seq in Allopolyploid Species. International Journal of Plant Genomics No. 2013 (2013), pp.1-6.
https://search.emarefa.net/detail/BIM-505686
American Medical Association (AMA)
Peralta, Marine& Combes, Marie-Christine& Cenci, Alberto& Lashermes, Philippe& Dereeper, Alexis. SNiPloid : A Utility to Exploit High-Throughput SNP Data Derived from RNA-Seq in Allopolyploid Species. International Journal of Plant Genomics. 2013. Vol. 2013, no. 2013, pp.1-6.
https://search.emarefa.net/detail/BIM-505686
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-505686