ITR: A Novel Graph Database Architecture for Mining Discoveries from the Human Genome

ITR：一种新颖的图数据库架构，用于从人类基因组中挖掘发现

• 批准号: 0082964
• 负责人: Christopher Lee
• 金额: $ 49.93万
• 依托单位: University of California-Los Angeles
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2000
• 资助国家: 美国
• 起止时间: 2000-09-01 至 2004-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0082964&HistoricalAwards=false
• 关键词: ITR; Novel; Graph; Database; Architecture

The goal of the Sutter graph database architecture is to help biologists make sense of the human genome, by enabling them to search genome sequence alignments for patterns of functional and structural relationships between genes. Sequence alignments are the key for discovering meaningful connections between diverse biological data, to make sense of the completed Human Genome. Yet no current database is designed to query detailed sequence alignment relationships as is needed. The Sutter architecture is designed to provide a fast, flexible, and intuitive query system for genomic alignment data, based on storing the entire graph database in a set of indexes, enabling direct lookup for any item to find its relationships. By focusing on indexing, Sutter can move away from the fixed, inflexible schema (table structure) of relational systems, while retaining some of the basis of their speed. A major design goal of Sutter is to implement genomic data objects efficiently, enabling it to store a full genome database in RAM, and achieve dramatically faster query performance. Sutter's first application is to serve the genome research community as an online resource for mining single-nucleotide polymorphisms, their effects on protein function, and mapping disease genes.

萨特图形数据库体系结构的目标是帮助生物学家理解人类基因组，使他们能够搜索基因组序列比对，以寻找基因之间功能和结构关系的模式。序列比对是发现不同生物数据之间有意义的联系，理解完整的人类基因组的关键。然而，目前还没有设计数据库来根据需要查询详细的序列比对关系。Sutter架构旨在为基因组比对数据提供快速、灵活和直观的查询系统，其基础是将整个图形数据库存储在一组索引中，从而实现对任何项目的直接查找以找到其关系。通过专注于索引，Sutter可以摆脱固定的、僵化的关系系统模式(表结构)，同时保留其速度的一些基础。Sutter的一个主要设计目标是高效地实现基因组数据对象，使其能够在RAM中存储完整的基因组数据库，并实现显著更快的查询性能。Sutter的第一个应用是作为在线资源为基因组研究社区服务，以挖掘单核苷酸多态及其对蛋白质功能的影响，并绘制疾病基因图谱。