TIGR/JTC Large Scale Sequencing Production Center

TIGR/JTC大规模测序生产中心

• 批准号: 6739261
• 负责人: Karin A. Remington
• 金额: $ 1000万
• 依托单位: INSTITUTE FOR GENOMIC RESEARCH
• 依托单位国家: 美国
• 财政年份: 2003
• 资助国家: 美国
• 起止时间: 2003-11-10 至 2004-10-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6739261
• 关键词: bioinformatics; biomedical facility; computer program /software; cooperative study; genome; nucleic acid sequence; polymerase chain reaction; single nucleotide polymorphism

DESCRIPTION (provided by applicant): The goals of the Large-Scale Genome Sequencing Production Center (Center) described in this application are to: (1) provide proven expertise in large-scale DNA sequencing and bioinformatics to the study of high priority eukaryotic species to consistently produce draft and finished genome sequences and annotation of the highest possible quality; (2) rapidly release genome sequence data, sequence traces, assemblies, and associated annotation to the public domain; (3) provide reagents and software developed under this grant to the scientific community; and (4) investigate and implement novel methods and technologies that can significantly increase sequencing throughput while decreasing sequencing costs. The Center will accomplish these goals through the application of a robust and sophisticated pipeline for large-scale genome sequencing and analysis that has been developed by a team of investigators that are world leaders in this field and have collectively sequenced more genomes than any other sequencing center. These include more than 40 microbial species, 13 parasitic and fungal pathogens, 2 plant species (Arabidopsis thaliana and rice), 2 insect species (Drosophila melanogaster and Anopheles gambiae), and 4 mammalian species (human, mouse, rat, and dog) to date, totaling more than 100 million sequencing reactions and over 10 billion base pairs of assembled genome sequence. Sequencing activities described in this application will be carried out at the newly created J. Craig Venter Science Foundation Joint Technology Center (JTC), a TIGR affiliate. The JTC laboratories have been designed to support high-throughput production pipelines for shotgun and BAC end sequencing projects and for PCR-based resequencing and SNP discovery at a level of 45 million sequencing reactions per year in its first year of operation. The JTC is designed to scale to over 120 million sequencing reactions per year. The initial per lane costs for the TIGR/JTC Sequencing Production Center are less than $0.94 and finishing costs are $.0.001 per basepair with significant reductions in the outlying years.

描述（由申请人提供）：本申请中描述的大规模基因组测序生产中心（中心）的目标是：（1）为高优先级真核生物物种的研究提供大规模DNA测序和生物信息学方面的经证实的专业知识，以一致地生产草图和成品基因组序列以及最高可能质量的注释;（2）迅速向公共领域发布基因组序列数据、序列跟踪、组装和相关注释;（3）向科学界提供根据该资助开发的试剂和软件;和（4）研究和实施可以显著增加测序通量同时降低测序成本的新方法和技术。 该中心将通过应用一个强大而复杂的大规模基因组测序和分析管道来实现这些目标，该管道由一个研究团队开发，该团队是该领域的世界领导者，并且集体测序了比任何其他测序中心更多的基因组。 这些包括超过40种微生物物种，13种寄生虫和真菌病原体，2种植物物种（拟南芥和水稻），2种昆虫物种（黑腹果蝇和冈比亚按蚊）和4种哺乳动物物种（人类，小鼠，大鼠和狗），迄今为止，总计超过1亿次测序反应和超过100亿个碱基对的组装基因组序列。本申请中描述的测序活动将在新创建的TIGR附属机构J.克雷格文特尔科学基金会联合技术中心（JTC）进行。 JTC实验室的设计旨在支持鸟枪和BAC末端测序项目的高通量生产管道，以及基于PCR的重测序和SNP发现，在其运营的第一年，每年可进行4500万次测序反应。JTC的设计规模为每年超过1.2亿次测序反应。 TIGR/JTC测序生产中心的每条泳道的初始成本低于0.94美元，每碱基对的最终成本为0.001美元，在边远年份显着降低。