UNMC: MICROARRAY CORE, GENOMICS

UNMC：微阵列核心、基因组学

• 批准号: 7725172
• 负责人: JAMES D EUDY
• 金额: $ 9.77万
• 依托单位: UNIVERSITY OF NEBRASKA MEDICAL CENTER
• 依托单位国家: 美国
• 财政年份: 2008
• 资助国家: 美国
• 起止时间: 2008-05-01 至 2009-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7725172
• 关键词: Area; Bacterial Infections; Biological Models; Biological Process; Cell Membrane Permeability; Cells; Chlorella; Communities; Computer Retrieval of Information on Scientific Projects Database; Congenital Heart Defects; Core Facility; Custom; Data; Development; Diabetes Mellitus; Disease; Doctor of Philosophy; Drosophila genus; Equipment; Evolution; Fetal Alcohol Syndrome; Funding; Gene Expression; Gene Expression Regulation; Genes; Genetic Transcription; Genomics; Glaucoma; Grant; HIV; Heart failure; Human; Human Resources; Immune; Immune system; Institution; Knowledge; Laboratories; Listeria; Listeria monocytogenes; Lung diseases; Lymphoma; Malignant Neoplasms; Malignant neoplasm of prostate; Metabolism; Modeling; Molecular; Mus; Nebraska; Nerve Degeneration; Oligonucleotides; Operative Surgical Procedures; Paramecium; Parkinson Disease; Pattern; Pituitary Neoplasms; Printing; Process; Protein Overexpression; Pseudomonas aeruginosa; Reagent; Research; Research Personnel; Resources; Retinal Diseases; Robotics; Services; Signal Transduction; Slide; Source; Spottings; Support of Research; Surveys; United States National Institutes of Health; Universities; Virulence Factors; Virus; Work; alcohol exposure; cancer genetics; college; design; functional genomics; hearing impairment; homoserine lactone; insight; instrumentation; leukemia; malignant breast neoplasm; malignant mouth neoplasm; pathogen; programs; quorum sensing; rat genome; research study

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. The Microarray Core Facility has provided service and support to INBRE associates as well as other academic investigators in the State of Nebraska during Year #1 of the INBRE grant. Funds were used to purchase reagents to fabricate and process slides, upgrade microarray specific instrumentation critical to the operations of the facility, and to provide personnel support including 50 % FTE for a research technologist and 15% FTE for the director of the core. The support received from the INBRE program has had a tremendous impact on the ability of the core facility to provide functional genomics support to the academic community. Outlined below are the accomplishments of the core since June of 2004. MICROARRAY SERVICES AND SUPPORT YEAR #4 INBRE Associates: Kim Carlson Ph.D. University of Nebraska at Kearney: The facility has completed a set of microarray experiments (analysis underway) with Dr. Carlson to perform a functional genomics experiment using Drosophila Affymetrix GeneChips. The specific project is determining the gene regulation of developmental and immune genes as a result of OTK18 overexpression using Drosophila as a model system. Doug Christensen PhD-Wayne State: The facility has printed a custom spotted microarray to survey Listeria monocytogenes gene expression. Gene expression experiments will begin soon. This data will be used to further knowledge of virulence factors associated with Listeria and how cells of the human immune system may or may not stimulate unique gene transcription in this pathogen. Barbara Clement PhD-Doane College: The core facility has been working with Dr. Clement designing experiments to study the effect of membrane permeability on the ability of Pseudomonas aeruginosa to detect quorum sensing (QS) signals (N-acyl homoserine lactones or AHL). Experiments are underway. Garry Duncan PhD Nebraska Wesleyan University: The facility has been working with Dr. Duncan designing a custom spotted microarray to survey Paramecium bursaria Chlorella virus-1 (PBCV-1) gene expression. Preliminary printing and subsequent gene expression data is intriguing. This virus is an ancient virus with some atypical molecular mechanisms and thus may yield insight into evolution of metabolism and other biological processes. Kathleen Tallman PhD-Doane College: The facility has been working with Dr. Tallman designing experiments to study changes in gene expression in mice following ethanol exposure. This is intended to serve as a model for fetal alcohol syndrome studies. Non-INBRE Investigators: Spotted Array Platform: The core routinely prints and processes 10K slide sets representing human, mouse and rat genomes using the oligonucleotide sets and robotic spotter purchased with BRIN funds. The Core also prints custom arrays for researchers. In addition to the INBRE users listed above, the facility serviced 20 investigators from four institutions in the State of Nebraska. 15 of these researchers were at UNMC, 3 were at UNL, 1 at UNO, and 1 at Creighton University. Affymetrix Platform: The BRIN supported research technologist in the laboratory processed Affymetrix chips for 21 investigators located at three institutions in Nebraska. These include 19 investigators at UNMC, 1 at UNO, and 1 at Boystown National Research Hosptital. Examples of Research Areas Of Above Investigators: Retinal disease, prostate cancer, lymphoma, Parkinson?s disease, methlyation patterns and cancer, HIV associated neural degeneration, bacterial infection associated disease, leukemia, pulmonary disease, developmental heart defects, heart failure, glaucoma, oral cancer, genetics of hearing loss, pituitary tumors, breast cancer, and diabetes. EQUIPMENT PURCHASES Funds from year #4 were used to purchase 32 new printer pins for the robotic spotter. This is necessary to keep the spotter printing slides with uniform spots.

该子项目是利用该技术的众多研究子项目之一 资源由 NIH/NCRR 资助的中心拨款提供。子项目和 研究者 (PI) 可能已从 NIH 的另一个来源获得主要资金， 因此可以在其他 CRISP 条目中表示。列出的机构是 对于中心来说，它不一定是研究者的机构。 在 INBRE 资助的第一年，微阵列核心设施为 INBRE 同事以及内布拉斯加州的其他学术研究人员提供了服务和支持。资金用于购买试剂来制造和处理载玻片、升级对设施运营至关重要的微阵列专用仪器，并提供人员支持，包括为研究技术人员提供 50% 的全职工作时间，为核心主任提供 15% 的全职工作时间。 INBRE 项目的支持对核心设施向学术界提供功能基因组学支持的能力产生了巨大影响。下文概述了该核心自 2004 年 6 月以来所取得的成就。 微阵列服务和支持第 4 年 INBRE 同事： 金·卡尔森博士内布拉斯加大学科尔尼分校：该机构已与 Carlson 博士完成了一系列微阵列实验（分析正在进行中），以使用果蝇 Affymetrix GeneChips 进行功能基因组学实验。 该具体项目正在使用果蝇作为模型系统来确定 OTK18 过度表达导致的发育和免疫基因的基因调控。 韦恩州立大学道格·克里斯滕森 (Doug Christensen) 博士：该设施打印了定制的斑点微阵列来调查单核细胞增生李斯特氏菌基因表达。基因表达实验即将开始。这些数据将用于进一步了解与李斯特菌相关的毒力因子，以及人类免疫系统的细胞如何刺激或不刺激该病原体中的独特基因转录。 多恩学院 Barbara Clement 博士：核心设施一直与 Clement 博士合作设计实验，研究膜渗透性对铜绿假单胞菌检测群体感应 (QS) 信号（N-酰基高丝氨酸内酯或 AHL）能力的影响。 实验正在进行中。 加里·邓肯 (Garry Duncan) 博士 内布拉斯加卫斯理大学：该机构一直在与邓肯博士合作设计定制斑点微阵列，以调查草履虫小球藻病毒 1 (PBCV-1) 基因表达。初步打印和随后的基因表达数据很有趣。这种病毒是一种古老的病毒，具有一些非典型的分子机制，因此可以深入了解新陈代谢和其他生物过程的进化。 多恩学院 Kathleen Tallman 博士：该机构一直在与 Tallman 博士合作设计实验，研究小鼠暴露于乙醇后基因表达的变化。这旨在作为胎儿酒精综合症研究的模型。 非 IBRE 调查人员： 斑点阵列平台：核心使用 BRIN 资金购买的寡核苷酸组和机器人点样器定期打印和处理代表人类、小鼠和大鼠基因组的 10K 幻灯片组。 Core 还为研究人员打印定制阵列。除了上面列出的 INBRE 用户之外，该机构还为来自内布拉斯加州四个机构的 20 名调查人员提供服务。其中 15 名研究人员来自 UNMC，3 名来自 UNL，1 名来自 UNO，1 名来自 Creighton 大学。 Affymetrix 平台：BRIN 支持实验室的研究技术人员为内布拉斯加州三个机构的 21 名研究人员处理 Affymetrix 芯片。其中包括 UNMC 的 19 名研究人员、UNO 的 1 名研究人员和 Boystown National Research Hospital 的 1 名研究人员。 上述研究人员的研究领域示例：视网膜疾病、前列腺癌、淋巴瘤、帕金森病、甲基化模式和癌症、HIV相关神经变性、细菌感染相关疾病、白血病、肺部疾病、发育性心脏缺陷、心力衰竭、青光眼、口腔癌、听力损失遗传学、垂体肿瘤、乳腺癌和糖尿病。 设备采购 第 4 年的资金用于为机器人观测器购买 32 个新的打印机针。 这对于保持点样器打印载玻片上的点均匀是必要的。