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） 该提案汇集了盖塞尔医学院的 2 个独立的共享资源，他们建议 为 2 个不同的客户共享 ISCAN 系统，第一个是 DartMouse，一个共享的系统。 真正服务于主要由 NIH 资助的扫描研究人员的全国客户的资源 小鼠样本基因组中的 SNP，用于识别不同小鼠背景的遗传贡献区域 该服务用于 1) 速度同源性（将转基因转移到不同的遗传近交背景中，2) 背景检查（验证小鼠或小鼠的实际小鼠背景）。小鼠细胞系）和 3）小鼠 GWAS 研究 DartMouse 最初是为达特茅斯研究人员提供的本地服务，并迅速响应其他学术用户的需求，现在我们已为来自超过 170 名的用户提供服务。过去 7 年，我们对 100 个机构进行了 5400 多个基因组分析，目前每年使用 1000 多个基因组，我们将当前的成功归功于我们是研究人员，我们真正了解学术研究人员及其在小鼠遗传学方面的需求。我们擅长的方面是：准确性和质量控制、实惠的价格、快速周转、专有的数据分析程序，可生成易于理解的菌株对每个染色体的贡献图谱信息。所需仪器的第二个用户是基因组学和分子生物学共享资源 (GMBSR)，提供 Illumina iSCAN 仪器特有的各种基因组学服务，包括 1) 人类转录组阵列、2) 人类甲基化阵列、3) 小鼠 GWAS 阵列和 4) 人类 GWAS 阵列。通过微阵列研究进行转录组分析仍然是多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。由于价格相对较低且周转时间较短，微阵列非常适合高通量研究，例如人类甲基化研究，达特茅斯基因组学和分子生物学共享资源 (GMBSR) 由 Chris Amos 指导的生物信息学核心支持，并且易于使用。转录组、GWAS 和甲基化阵列数据的分析是进行此类研究的研究人员的主要考虑因素，因此，即使下一代测序（我们也在网站上提供）得到了发展。 Dartmouth），我们的微阵列业务一直保持稳定，我们预计随着 Illumina iSCAN 的加入以及提供新颖服务（包括甲基化和 GWAS 功能）的能力，我们的业务将继续增长。

项目成果

Loss of microRNA-21 leads to profound stromal remodeling and short survival in K-Ras-driven mouse models of pancreatic cancer.

在 K-Ras 驱动的胰腺癌小鼠模型中，microRNA-21 的缺失会导致严重的基质重塑和较短的生存期。

• 发表时间: 2020
• 影响因子: 6.4
• 作者: Schipper, Josh;Westerhuis, Jennifer J;Beddows, Ian;Madaj, Zach;Monsma, David;Hostetter, Galen;Kiupel, Matti;Conejo;Sempere, Lorenzo F
• 通讯作者: Sempere, Lorenzo F

Inbred Strain Characteristics Impact the NKT Cell Repertoire.

自交系特征影响 NKT 细胞库。

• 发表时间: 2021
• 作者: Shissler, Susannah C;Bates, Joshua P;Hester, Danubia;Jones, Laundette P;Webb, Tonya J
• 通讯作者: Webb, Tonya J