Web-based Atlas of Zebrafish Microanatomy as a Community Resource

基于网络的斑马鱼显微解剖图谱作为社区资源

• 批准号: 8727127
• 负责人: Keith Chi Cheng
• 金额: $ 73.8万
• 依托单位: PENNSYLVANIA STATE UNIV HERSHEY MED CTR
• 依托单位国家: 美国
• 财政年份: 2002
• 资助国家: 美国
• 起止时间: 2002-07-01 至 2016-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8727127
• 关键词: Adopted; Adult; Affect; American; Anatomy; Animal Model; Atlases; Biological Models; Biological Process; Biology; Cells; Chicago; Collaborations; Collection; Communicable Diseases; Communication; Communities; Community Integration; Computer Hardware; Computer software; Cone; Data; Databases; Deficiency Diseases; Development; Disease; Embryo; Equilibrium; Eye; Fertility; Fishes; Foundations; Funding; Generations; Genetic; Genetic Models; Genetic Screening; Genetic Structures; Glass; Goals; Health; Heart Diseases; Histology; Home environment; Homologous Gene; Hour; Human; Human Biology; Human Pathology; Human Resources; Human body; Image; Imagery; Individual; Infection; Informatics; Information Networks; Institutes; Knowledge; Label; Laboratories; Larva; Life; Link; Location; Longevity; Malignant Neoplasms; Medicine; Methods; Microanatomy; Mission; Modeling; Morphogenesis; Morphology; Mus; Mutation; Nature; Nervous system structure; Neural Pathways; Neuroanatomy; Normal Range; Normal tissue morphology; Online Systems; Ontology; Oregon; Organ; Organism; Pathogenesis; Pathologist; Pathology; Phase; Phase Transition; Phenotype; Physicians; Pigments; Principal Investigator; Recommendation; Recording of previous events; Relative (related person); Research; Research Infrastructure; Research Personnel; Resolution; Resources; Roentgen Rays; Site; Slice; Slide; Staging; Structure; Synchrotrons; Technology; Testing; Text; Three-Dimensional Imaging; Time; Tissues; United States National Institutes of Health; Universities; Utah; Vision; Work; X-Ray Computed Tomography; Zebrafish; base; cell type; comparative; data integration; data sharing; digital; disease phenotype; gene function; human disease; human tissue; imaging modality; instrument; interdisciplinary collaboration; interest; member; multidisciplinary; mutant; optical imaging; photonics; prevent; programs; public health relevance; reconstruction; research study; response; role model; skeletal; skin color; three dimensional structure; tool; virtual; web interface; web site; working group

DESCRIPTION (provided by applicant): The zebrafish is now a common, non-mammalian model of human disease due to experimental features such as small size, transparency, and powerful genetic tools. In response to NIH-sponsored Zebrafish and Aquatic Models working groups' recommendations, an important piece of American scientific infrastructure is being established in the form of a web-based atlas of anatomy, histology, and pathology. This atlas will be accessible from www.zfatlas.psu.edu and the Zebrafish Information Network (ZFIN) at the University of Oregon (www.zfin.org). Normal anatomy will serve as critical context for the study of abnormal anatomy caused by genetic deficiencies and disease. The atlas' personnel, imaging and computer hardware and web site comprise the infrastructure for users to view mutant/morphant/diseased zebrafish in the context of normal, in both 2D and 3D. Specific Aim 1 is to integrate abnormal phenotypes into the atlas starting with an established mutant collection, to create a nondestructive mechanism for remote labeling of web-based, state-of-the-art virtual slides that allows viewing of histological tissue sections at different powers, to integrate the zebrafish atlas with other web-based resources including the home of zebrafish web-based resources (www.zfin.org), and to use the web interface to display a range of mutant phenotypes. Specific Aim 2 is to develop mechanisms for analyzing and displaying 3D zebrafish data. We will segment and label different organs from digital 3D representations of zebrafish, and explore, test, and implement integrated interfaces between virtual slides and 3D representations of zebrafish created by microCT imaging at subcellular resolutions. Specific Aim 3 is to build a foundation for structural and functional integration across models systems. This aim will utilize zebrafish, mouse, and human as the organisms of interest, and use specific skeletal, eye, and skin color mutations as a paradigm for describing the roles of model systems in understanding a biological function and disease. This aim will focus on normal tissues shared by all three species followed by pathology shared by all three species. The integrations of this community resource will serve as a model for all model system web sites, serving multiple missions across the NIH.

描述（由申请人提供）：斑马鱼现在是一种常见的人类疾病的非哺乳动物模型，这是由于其实验特征，如体积小，透明度和强大的遗传工具。为了响应NIH赞助的斑马鱼和水生模型工作组的建议，美国科学基础设施的一个重要组成部分正在以基于网络的解剖学，组织学和病理学地图集的形式建立。该地图集可从www.zfatlas.psu.edu和俄勒冈州大学的斑马鱼信息网络（ZFIN）（www.zfin.org）获得。正常解剖结构将作为研究遗传缺陷和疾病引起的异常解剖结构的关键背景。地图集的人员、成像和计算机硬件以及网站构成了用户在正常情况下以2D和3D方式查看突变/变形/患病斑马鱼的基础设施。具体目标1是从建立的突变体集合开始将异常表型整合到图谱中，以创建用于远程标记基于网络的最先进的虚拟载玻片的非破坏性机制，该虚拟载玻片允许以不同的功率观察组织学组织切片，将斑马鱼图谱与其他基于网络的资源（包括基于斑马鱼网络的资源的主页（www.zfin.org））整合，并使用网络界面来显示一系列突变体表型。具体目标2是开发用于分析和显示3D斑马鱼数据的机制。我们将从斑马鱼的数字3D表示中分割和标记不同的器官，并探索，测试和实现通过microCT成像以亚细胞分辨率创建的斑马鱼虚拟幻灯片和3D表示之间的集成接口。具体目标3是为跨模型系统的结构和功能集成奠定基础。该目标将利用斑马鱼、小鼠和人类作为感兴趣的生物体，并使用特定的骨骼、眼睛和肤色突变作为描述模型系统在理解生物功能和疾病中的作用的范例。这一目标将侧重于所有三个物种共有的正常组织，然后是所有三个物种共有的病理学。这个社区资源的整合将作为所有模型系统网站的模型，为NIH的多个任务服务。