kmerDB:一个包含每个物种基因组和蛋白质组序列信息的数据库
Ioannis Mouratidis1,2, Fotis A Baltoumas3, Nikol Chantzi1
1Institute for Personalized Medicine, Department of Biochemistry and Molecular Biology, The Pennsylvania State University College of Medicine, Hershey, PA, USA.
概括
一个新的数据库,kmerDB,提供了从基因组和蛋白质组序列的全面的kmer信息. 它提供了数以百万计的独特和特定物种序列的访问权限,填补了生物信息学资源的关键空白.
科学领域:
- 生物信息学是一种生物信息学.
- 基因组学就是基因组学.
- 蛋白质组学是指蛋白质组学.
背景情况:
- 降低测序成本使广泛的参考基因组和蛋白质组产生成为可能.
- 在特定生物体的基因组和蛋白质组序列的集中存储库中存在定义长度 (kmers) 的缺口.
研究的目的:
- 介绍kmerDB,一个新的数据库,从基因组和蛋白质组序列提供系统的基于kmer的信息.
- 为访问和分析KMER数据提供一个用户友好的Web界面.
主要方法:
- 来自不同生物体的基因组和蛋白质组序列的编译.
- 识别和分类KMER序列,包括准原数 (特定物种) 和原数 (普遍缺席).
- 开发一个具有先进搜索和过功能的交互式Web界面.
主要成果:
- kmerDB拥有超过2020亿个基对和190亿个氨基酸,来自54,039个参考基因组和21,865个蛋白质组.
- 数据库包括数以百万计的准prime和prime核和序列.
- 一个用户友好的界面有助于高效的数据检索和分析.
结论:
- kmerDB解决了对KMER信息的全面存储库的需求.
- 该数据库是基因组学,蛋白质组学和相关领域的研究人员的宝贵资源.
- 通过基于kmer的方法,kmerDB增强了对基因组和蛋白质组数据的系统分析.
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