Acquisition of computer system for computational biology

获取计算生物学计算机系统

• 批准号: 7794511
• 负责人: Ion I. Moraru
• 金额: $ 44.23万
• 依托单位: UNIVERSITY OF CONNECTICUT SCH OF MED/DNT
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-04-22 至 2012-04-21
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7794511
• 关键词: Address; Area; Bioinformatics; Cellular biology; Complex; Computational Biology; Computer Systems; Computers; Connecticut; Funding; Genomics; Individual; Laboratory Research; Maintenance; Research; Research Personnel; Resources; Technology; Time; Universities; Work; computer cluster; operation; parallel computing; public health relevance; structural biology

DESCRIPTION (provided by applicant): This application seeks funding for a 10 TFlop computer cluster with 4 TB distributed RAM to support a diverse group of investigators from the University of Connecticut working on challenging problems in computational biology. The NIH-supported projects encompass computational cell biology, translational genomics, and structural biology. Even though this not a large cluster by today's standards, it exceeds by several times the computational capacity available to these investigators, who are currently severely constrained by existing resources. The cluster will supplement (and replace some of) a number of dispersed and out-dated clusters and small SMP servers maintained by individual labs. The cluster will facilitate computation through more up-to-date processor technology, increased total capacity, and the ability to attack massively parallel computations that are beyond the current capabilities. The efficiencies enabled by a shared maintenance and operation of the cluster will reduce the effort required by individual labs to support individual clusters. PUBLIC HEALTH RELEVANCE: This application seeks funding for a powerful computer system to be shared between several research laboratories from the University of Connecticut. The NIH-supported projects encompass diverse areas of computational biology and bioinformatics. The proposed shared computer will both accelerate current research and allow the investigators to tackle more complex problems that they cannot currently address with existing capabilities.

描述（由申请人提供）：本申请寻求资金支持具有 4 TB 分布式 RAM 的 10 TFlop 计算机集群，以支持康涅狄格大学的不同研究人员小组致力于计算生物学中的挑战性问题。美国国立卫生研究院支持的项目包括计算细胞生物学、翻译基因组学和结构生物学。尽管按照今天的标准，这并不是一个大的集群，但它超出了这些研究人员可用的计算能力的几倍，而这些研究人员目前受到现有资源的严重限制。该集群将补充（并取代部分）由各个实验室维护的一些分散且过时的集群和小型 SMP 服务器。该集群将通过更先进的处理器技术、增加的总容量以及攻击超出当前能力的大规模并行计算的能力来促进计算。集群的共享维护和操作所带来的效率将减少各个实验室支持各个集群所需的工作量。 公共卫生相关性：该申请寻求资金来建立强大的计算机系统，以便在康涅狄格大学的几个研究实验室之间共享。美国国立卫生研究院支持的项目涵盖计算生物学和生物信息学的各个领域。拟议的共享计算机将加速当前的研究，并使研究人员能够解决他们目前无法用现有能力解决的更复杂的问题。

项目成果

RENT+: an improved method for inferring local genealogical trees from haplotypes with recombination.

RENT：一种通过重组从单倍型推断局部谱系树的改进方法。

• 发表时间: 2017-04-01
• 作者: Mirzaei, Sajad;Wu, Yufeng
• 通讯作者: Wu, Yufeng

A coalescent-based method for population tree inference with haplotypes.

一种基于合并的单倍型群体树推断方法。

• 发表时间: 2015-03-01
• 作者: Wu; Yufeng
• 通讯作者: Yufeng

An algorithm for computing the gene tree probability under the multispecies coalescent and its application in the inference of population tree.

多物种合并下基因树概率计算算法及其在种群树推理中的应用

• 发表时间: 2016-06-15
• 作者: Wu; Yufeng
• 通讯作者: Yufeng