gsrc: an R package for genome structure rearrangement calling
gsrc: an R package for genome structure rearrangement calling
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DOI：
10.1093/bioinformatics/btw648
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发表时间：
2017-02-15
期刊：
影响因子：
5.8
通讯作者：
Samans, Birgit
中科院分区：
文献类型：
--
作者：
Grandke, Fabian;Snowdon, Rod;Samans, Birgit
Genome structure rearrangements are a common phenomenon in allopolyploid species. Deletions, duplications and homeologous non-reciprocal translocations (HNRT) between the highly similar subgenomes can be observed, which are known to have a large impact on phenotypic traits. Current research is limited because these rearrangements can be located genome wide only by cost intensive sequencing approaches and not reliably in high-density array genotyping data. We developed gsrc, an R-package to detect genome structure rearrangements from genotyping data in allopolyploid species including exchanges between subgenomes. We exemplarily apply gsrc to a publicly available Brassica napus dataset.
