Interactive multiple gene expression map for the brain

大脑的交互式多基因表达图

• 批准号: 6478294
• 负责人: KIMINOBU SUGAYA
• 金额: $ 18.09万
• 依托单位: UNIVERSITY OF ILLINOIS AT CHICAGO
• 依托单位国家: 美国
• 财政年份: 2002
• 资助国家: 美国
• 起止时间: 2002-06-01 至 2006-05-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6478294
• 关键词: Internet; aging; autoradiography; bioengineering /biomedical engineering; bioimaging /biomedical imaging; brain; brain imaging /visualization /scanning; brain mapping; brain morphology; computer human interaction; computer system design /evaluation; gene expression; histochemistry /cytochemistry; image processing; in situ hybridization; information dissemination; information systems; laboratory rat; male; sectioning

DESCRIPTION (provided by applicant): Current molecular biological techniques allow us to visualize semi-quantitative levels of gene expression in situ. For example, autoradiographical image data from in situ hybridization histochemistry (ISHH) provides a wealth of information, which if made readily available could be beneficial for neuroscience researchers. However, in most cases due to the scope of their particular research interests this ISHH data has been widely overlooked by many researchers. Thus, much of the gene expression data tends to get discarded or at best becomes unavailable for future review by other researchers. For example, one researcher may have vested interests in the gene expression of brain type nitric oxide synthase (bNOS) in cholinergic nuclei, and other researchers may have interests in the serotonergic nuclei. Until this proposal, there has been no considerable effort to facilitate the sharing of such bNOS gene expression data amongst researchers. In essence, for their particular research interests, these investigators will need to repeat the same bNOS ISHH for their publications, time and time again. In order to eliminate such progress-retarding redundancy, we propose a data sharing system (interactive Multiple Gene Expression Map, IMGEM) that will be available as an interactive brain map of gene expression. This interactive tool will provide benefits essential for continuing to make great strides in discovery and mapping of gene expression by neuroscientists. We will employ the technological advantages of electronic databasing by creating a series of brain atlases as follows: 1) IMGEM will contain 2D images of all brain sections with multiple levels of resolution, 2) by the 2D and 3D image analysis, IMGEM will facilitate the comparison of multiple gene expressions and morphological structures (Niss1-stain), 3) by three dimensional reconstruction of the image data, IMGEM will allow for free rotation of the 3D image and virtual-sectioning of the brain will be possible in any desired plane, 4) IMGEM will include a server-side, graphical interface discussion board (or discussion forum) capability, which will be capable of receiving responses or input from IMGEM users in real-time; and as an additional benefit, IMGEM will be readily edited and updated to reflect the real-time input of online users, 5) IMGEM will be seamlessly integrated with other currently available online databases and hyperlinks to other data resources on the Internet will be highlighted and easily accessible via IMGEM's user-friendly design and navigation. The long-term goal of this current proposal is to gain further insights from the information available (data in the present and future) for brain gene expression mapping; and in so doing, to seek to better apply this collective knowledge for our continued understanding of normal and diseased human brain function. Our laboratory has been providing prominent ISHH data in serial brain sections with special expertise in the combination of ISHH and immunohistochemistry techniques in the same brain section. The applicant has exhibited skilled experience in creation of a commercial software package for multi dimensional data analysis, construction of relational database system on network, computer aided manipulation of imaging data and in programming of HTML, DHTML, VRML, JAVA, CGI and Perl scripts, languages necessary to accomplish the scope of the IMGEM project. Thus, we believe that our laboratory is uniquely, qualified to pursue this current proposal.

描述（由申请人提供）：当前分子生物学技术 使我们能够在原位观察基因表达的半定量水平。为 例如，来自原位杂交的放射自显影图像数据 组织化学（ISHH）提供了丰富的信息， 可能对神经科学研究人员有益。但在大多数 由于其特殊研究兴趣的范围，ISHH数据 被许多研究者所忽视。因此，大部分基因 表达式数据往往会被丢弃，或者最多变得不可用， 其他研究人员的未来评论。例如，一位研究人员可能有 脑型一氧化氮合酶基因表达的既得利益 （bNOS）在胆碱能核，和其他研究人员可能有兴趣在 能神经核。在此之前，没有任何重大的 努力促进这些bNOS基因表达数据的共享 研究人员从本质上讲，对于他们的特殊研究兴趣，这些 研究者将需要为他们的出版物重复相同的bNOS ISHH， 一次又一次为了消除这种阻碍进展的冗余， 我们提出了一种数据共享系统（交互式多基因表达图谱， IMGEM），这将是一个互动的基因表达大脑地图。 这一互动工具将提供必要的好处， 神经科学家在发现和绘制基因表达图谱方面取得了重大进展。 我们将利用电子数据库的技术优势， 创建一系列大脑图谱如下：1）IMGEM将包含2D图像 在具有多个分辨率水平的所有大脑切片中，2）通过2D和3D 图像分析，IMGEM将方便多个基因的比较 表达和形态结构（Niss 1-染色），3）通过三个 三维重建的图像数据，IMGEM将允许免费 3D图像的旋转和大脑的虚拟切片将成为可能 在任何所需的平面中，4）IMGEM将包括服务器端的图形界面 讨论板（或论坛）功能，它将能够 实时接收来自IMGEM用户的响应或输入;以及 额外的好处，IMGEM将随时编辑和更新，以反映 在线用户的实时输入，5）IMGEM将与 其他现有在线数据库和其他数据的超链接 互联网上的资源将被突出显示，并通过 IMGEM的用户友好的设计和导航。长期目标是 目前的建议是从现有的信息中获得进一步的见解 (data在现在和将来）用于脑基因表达图谱;在这样的情况下， 为了更好地应用这些集体知识， 了解正常和患病的人脑功能。 我们的实验室一直在提供连续脑切片的突出ISHH数据 在ISHH和免疫组织化学结合方面具有特殊专长 在同一个脑区的技术。申请人表现出熟练的 在创建一个商业软件包的多维经验 数据分析，网络关系数据库系统的构建，计算机 图像数据的辅助操作和HTML、DHTML、VRML的编程， Java、CGI和Perl脚本，这些语言是完成 IMGEM项目。因此，我们相信，我们的实验室是独一无二的，有资格， 继续执行目前的建议。