Illumina ISCAN Microarray Reader

Illumina ISCAN 微阵列芯片阅读器

• 批准号: 9075704
• 负责人: STEVEN FIERING
• 金额: $ 26.36万
• 依托单位: DARTMOUTH COLLEGE
• 依托单位国家: 美国
• 财政年份: 2016
• 资助国家: 美国
• 起止时间: 2016-04-01 至 2017-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9075704
• 关键词: Bioinformatics; Biological Assay; Businesses; Chromosomes; Data; Data Analyses; Data Set; Development; Funding; Future; Genetic; Genome; Genomics; Human; Inbreeding; Institution; Maps; Methylation; Molecular Biology Shared Resource; Mouse Cell Line; Mus; Price; Quality Control; Reader; Research Personnel; Research Project Grants; Resource Sharing; Sampling; Scanning; Services; Speed; System; Time; Transgenes; United States National Institutes of Health; congenic; genome wide association study; instrument; medical schools; mouse genome; next generation sequencing; novel; programs; success; transcriptome

 DESCRIPTION (provided by applicant) This proposal bring together 2 separate shared resources at Geisel School of Medicine who propose to share usage of the ISCAN system for 2 different clientele. The primary will be DartMouse, a shared resource that literally serves a national clientele of primarily NIH funded researchers in scanning SNPs in genomes of mouse samples to identify regions of genetic contribution from different mouse backgrounds. The service is used for 1) speed congenics (transferring a transgene into a different genetic inbred background, 2) background checks (validating the actual mouse backgrounds in mice or mouse cell lines) and 3) mouse GWAS studies. DartMouse started as a local service for Dartmouth researchers and quickly responded to demand from other academic users so that now we have served 170 users from over 100 institutions and have assayed over 5400 genomes in the last 7 years with a current usage of over 1000 genomes per year. We attribute our current success to the fact that we are researchers and we really understand academic researchers and their needs in mouse genetics. Specific aspects at which we excel are: accuracy and quality control, affordable price, rapid turnaround, proprietary data analysis program that generates easy to understand mapping information of strain contribution to each chromosome.The second user of the requested instrument is the Genomics and Molecular Biology Shared Resource (GMBSR), which offer a variety of genomics services. Those that are specific to the Illumina iSCAN instrument include, 1) human transcriptome arrays, 2) human methylation arrays, 3) mouse GWAS arrays and 4) human GWAS arrays. Transcriptome profiling via microarray studies remains a main stay application for several research projects. Often researchers have historical data sets and wish to continue using the same platform for their future studies. Due to the relatively low price and quick turnaround times, microarrays are ideally suited to high throughput studies such as human methylation studies. Dartmouth Genomics and Molecular Biology Shared Resource (GMBSR) is supported by the Bioinformatics core, directed by Chris Amos, and the ease of analysis of transcriptome, GWAS and methylation array data is a major consideration for researchers undertaking these kinds of studies. Thus, even with the development of Next Generation Sequencing, (which we also offer at Dartmouth), our microarray business has remained steady, and we anticipate with the addition of the Illumina iSCAN and the ability to offer novel services, including methylation and GWAS capabilities that our business will continue to grow.

 描述(由申请人提供) 这项建议汇集了盖泽尔医学院的两个独立的共享资源，他们建议 为两个不同的客户共享Iscan系统的使用。主鼠标将是DartMouse，一个共享的 从字面上服务于主要由NIH资助的扫描研究人员的全国客户的资源 在小鼠样本基因组中发现SNPs，以确定来自不同小鼠背景的遗传贡献区域。这项服务用于1)速度遗传(将转基因转移到不同的遗传近亲交配背景中)，2)背景检查(验证小鼠或小鼠细胞系的实际小鼠背景)，以及3)小鼠GWA研究。DartMouse最初是为达特茅斯研究人员提供的一项本地服务，并迅速响应了其他学术用户的需求，现在我们已经为来自100多个机构的170名用户提供了服务，并在过去7年中分析了5400多个基因组，目前每年使用1000多个基因组。我们将目前的成功归功于这样一个事实，即我们是研究人员，我们真正了解学术研究人员及其对小鼠遗传学的需求。我们擅长的具体方面是：准确性和质量控制、负担得起的价格、快速周转、专有数据分析程序，该程序生成易于理解的菌株对每个染色体贡献的图谱信息。所请求的仪器的第二个用户是基因组学和分子生物学共享资源(GMBSR)，它提供各种基因组学服务。Illumina Iscan仪器特有的基因包括：1)人类转录组阵列，2)人类甲基化阵列，3)小鼠GWA型阵列和4)人GWA型阵列。通过微阵列研究的转录组图谱仍然是几个研究项目的主要应用。研究人员通常拥有历史数据集，并希望继续使用相同的平台进行未来的研究。由于相对较低的价格和较快的周转时间，微阵列非常适合于高通量研究，如人类甲基化研究。达特茅斯基因组和分子生物学共享资源(GMBSR)得到了由Chris Amos领导的生物信息学核心的支持，转录组、GWAS和甲基化阵列数据的易用性是从事这类研究的研究人员的主要考虑因素。因此，即使随着下一代测序的发展(我们在达特茅斯也提供)，我们的微阵列业务仍然保持稳定，我们预计随着Illumina Iscan的加入以及提供新服务的能力，包括甲基化和GWAS能力，我们的业务将继续增长。

项目成果

Inbred Strain Characteristics Impact the NKT Cell Repertoire.

自交系特征影响 NKT 细胞库。

• DOI: 10.4049/immunohorizons.2000066
• 发表时间: 2021
• 期刊: ImmunoHorizons
• 作者: Shissler,SusannahC;Bates,JoshuaP;Hester,Danubia;Jones,LaundetteP;Webb,TonyaJ
• 通讯作者: Webb,TonyaJ