- 1、本文档共11页,可阅读全部内容。
- 2、原创力文档(book118)网站文档一经付费(服务费),不意味着购买了该文档的版权,仅供个人/单位学习、研究之用,不得用于商业用途,未经授权,严禁复制、发行、汇编、翻译或者网络传播等,侵权必究。
- 3、本站所有内容均由合作方或网友上传,本站不对文档的完整性、权威性及其观点立场正确性做任何保证或承诺!文档内容仅供研究参考,付费前请自行鉴别。如您付费,意味着您自己接受本站规则且自行承担风险,本站不退款、不进行额外附加服务;查看《如何避免下载的几个坑》。如果您已付费下载过本站文档,您可以点击 这里二次下载。
- 4、如文档侵犯商业秘密、侵犯著作权、侵犯人身权等,请点击“版权申诉”(推荐),也可以打举报电话:400-050-0827(电话支持时间:9:00-18:30)。
- 5、该文档为VIP文档,如果想要下载,成为VIP会员后,下载免费。
- 6、成为VIP后,下载本文档将扣除1次下载权益。下载后,不支持退款、换文档。如有疑问请联系我们。
- 7、成为VIP后,您将拥有八大权益,权益包括:VIP文档下载权益、阅读免打扰、文档格式转换、高级专利检索、专属身份标志、高级客服、多端互通、版权登记。
- 8、VIP文档为合作方或网友上传,每下载1次, 网站将根据用户上传文档的质量评分、类型等,对文档贡献者给予高额补贴、流量扶持。如果你也想贡献VIP文档。上传文档
查看更多
galign a tool for rapid genome polymorphism discoverygalign快速发现基因组多态性的工具
galign: A Tool for Rapid Genome Polymorphism
Discovery
Shai Shaham*
Laboratory of Developmental Genetics, The Rockefeller University, New York, New York, United States of America
Abstract
Background: Highly parallel sequencing technologies have become important tools in the analysis of sequence
polymorphisms on a genomic scale. However, the development of customized software to analyze data produced by these
methods has lagged behind.
Methods/Principal Findings: Here I describe a tool, ‘galign’, designed to identify polymorphisms between sequence reads
obtained using Illumina/Solexa technology and a reference genome. The ‘galign’ alignment tool does not use Smith-
Waterman matrices for sequence comparisons. Instead, a simple algorithm comparing parsed sequence reads to parsed
reference genome sequences is used. ‘galign’ output is geared towards immediate user application, displaying
polymorphism locations, nucleotide changes, and relevant predicted amino-acid changes for ease of information
processing. To do so, ‘galign’ requires several accessory files easily derived from an annotated reference genome. Direct
sequencing as well as in silico studies demonstrate that ‘galign’ provides lesion predictions comparable in accuracy to
available prediction programs, accompanied by greater processing speed and more user-friendly output. We demonstrate
the use of ‘galign’ to identify mutations leading to phenotypic consequences in C. elegans.
Conclusion/Significance: Our studies suggest that ‘galign’ is a useful tool for polymorphism discovery, and is of immediate
utility for sequence mining in C. elegans.
Citation: Shaham S (2009) galign: A Tool for Rapid Genome Polymorphism Discovery. PLoS ONE 4(9): e7188. doi:10.1371/journal
您可能关注的文档
- flavor preference learning increases olfactory and gustatory convergence onto single neurons in the basolateral amygdala but not in the insular cortex in rats口味偏好学习增加嗅觉和味觉收敛到单一神经元在大鼠杏仁核的基底外侧区域后但不是岛叶皮质的老鼠.pdf
- flexibility in animal signals facilitates adaptation to rapidly changing environments灵活性在动物信号促进适应快速变化的环境.pdf
- flexibility of a eukaryotic lipidome – insights from yeast lipidomics真核lipidome的灵活性u2014u2014从酵母lipidomics见解.pdf
- flexion relaxation and its relation to pain and function over the duration of a back pain episode弯曲放松及其与疼痛的关系和函数在背部疼痛发作的持续时间.pdf
- flio regulation of flip in the formation of the salmonella enterica flagellumflio监管抛在沙门氏菌鞭毛的形成.pdf
- fli+ etsrp+ hemato-vascular progenitor cells proliferate at the lateral plate mesoderm during vasculogenesis in zebrafishfli + etsrp + hemato-vascular祖细胞增殖在侧板中胚层在斑马鱼血管生成.pdf
- flexible and accurate detection of genomic copy-number changes from acgh灵活和准确的检测基因组从acgh人类基因组的变化.pdf
- flexible cognitive strategies during motor learning灵活的运动学习中认知策略.pdf
- flooding greatly affects the diversity of arbuscular mycorrhizal fungi communities in the roots of wetland plants丛枝菌根真菌社区建立洪水极大地影响的多样性在湿地植物的根部.pdf
- flotillins are involved in the polarization of primitive and mature hematopoietic cellsflotillins参与原始和成熟的造血细胞的极化.pdf
文档评论(0)