A DNA SEQUENCE ASSEMBLY PROGRAM

DNA 序列组装程序

• 批准号: 6043643
• 负责人: Xiaoqiu Huang
• 金额: $ 13.29万
• 依托单位: IOWA STATE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 1996
• 资助国家: 美国
• 起止时间: 1996-08-01 至 2004-02-28
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6043643
• 关键词: DNA; biotechnology; computer assisted sequence analysis; computer program /software; computer system design /evaluation; nucleic acid repetitive sequence; nucleic acid sequence; parallel processing

DESCRIPTION (Adapted from the Investigator's Abstract): The investigators will develop and improve a DNA sequence assembly program for supporting large-scale DNA sequencing projects at public-funded genome centers. They developed a sequence assembly program named CAP3 in the initial project period. They propose to add new capabilities and make improvements to the CAP3 program. Specifically, the investigators will (1) improve the method for using forward-reverse constraints, (2) improve the method for generating consensus sequences, (3) add an option to support directed assembly in the sequence finishing phase, (4) add a capability to use databases of protein and EST sequences to order contigs produced in low-pass sequencing projects, and (5) add a capability to address alternative splicing patterns in assembly of EST sequences. They will work closely with Dr. Lee Hood's genome center. This relationship will ensure that their efforts on the assembly program will be relevant to real-world sequencing projects. The investigators will also assist the integration of their assembly program into sequencing environments at other genome centers.

描述(改编自《调查员摘要》)：调查员将 开发和完善支持大规模DNA序列组装的程序 公共资助的基因组中心的DNA测序项目。他们开发了一种 项目初期命名为CAP3的序列装配程序。他们 建议在CAP3计划中增加新的功能并进行改进。 具体来说，调查人员将(1)改进使用方法 正反向约束，(2)改进共识生成方法 序列，(3)添加一个选项以支持序列中的定向组装 完成阶段，(4)增加使用蛋白质和EST数据库的能力 对低通测序项目中产生的重叠群进行排序的序列，以及(5) 添加了解决EST组装中的可选剪接模式的功能 序列。他们将与李胡德博士的基因组中心密切合作。这 关系将确保他们在汇编程序上的努力将是 与真实世界的测序项目相关。调查人员还将协助 将他们的汇编程序集成到其他公司的测序环境中 基因组中心。