NDEx - the Network Data Exchange A Network Commons for Biologists

NDEx - 网络数据交换生物学家的网络共享空间

• 批准号: 9918260
• 负责人: Dexter Pratt
• 金额: $ 74.56万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN DIEGO
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-05-01 至 2022-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9918260
• 关键词: Address; Algorithms; Automation; Biological; Biology; Cancer Biology; Charge; Collaborations; Collection; Communities; Community Developments; Computer software; Data; Databases; Development; Facebook; Fostering; Funding; Genes; Genomics; Goals; Grant; Heterogeneity; Image; Informatics; Infrastructure; Journals; Knowledge; Link; Literature; Malignant Neoplasms; Maps; Methods; Mining; Modeling; Molecular; National Cancer Institute; Network-based; Pathway Analysis; Pathway interactions; Phase; Process; Provider; Publications; Publishing; Research; Research Personnel; Resources; Scientist; Services; Software Framework; Stratification; System; Time; Variant; Visualization; Work; anticancer research; cancer genome; cancer therapy; community building; cyber infrastructure; data exchange; genome analysis; genome-wide; improved; interest; journal article; member; next generation; online resource; open source; outreach; patient oriented; repository; social; social organization; text searching; tool; tumor; web site

Summary Knowledge of the hallmark networks of cancer has been key to interpreting the molecular heterogeneity seen within and across tumors. NDEx, the Network Data Exchange (www.ndexbio.org), is an online commons where scientists can upload, share, and publicly distribute molecular networks and pathway models. We are currently two years into a three-year grant from the National Cancer Institute (U24 CA184427A), during which time we have created the NDEx open-source platform; released NDEx as a public website; and begun to link NDEx to applications such as Cytoscape. Having built this initial system, our goals for the next funding period are to rapidly develop NDEx network content and communities and the means by which these resources impact cancer research and treatment. In particular, we will (1) Connect NDEx networks to next-generation cancer genome analysis; (2) Enable the direct publishing of interactive networks on journal websites; (3) Develop hallmark cancer pathway content via social organization and automation; and (4) Scale the NDEx framework to support a growing community of users and analysis tools. Through these aims, the emphasis of the NDEx Project transitions from core infrastructure to genome analysis workflows, cancer-relevant network content, publishing, and community building. These developments address a strong and immediate need in cancer research for a cyberinfrastructure that can analyze genome-scale information in the context of molecular networks.

摘要 对癌症标志性网络的了解是解释分子异质性的关键 在肿瘤内和肿瘤之间均可见。NDeX，即网络数据交换(www.ndexBio.org)，是一个在线 科学家可以上传、共享和公开分发分子网络和路径的公共场所 模特们。我们目前是国家癌症研究所(U24)为期三年的赠款的两年 CA184427A)，在此期间我们创建了NDeX开源平台；将NDeX发布为 一个公共网站；并开始将NDeX与Cytoscape等应用程序链接起来。在建立了这个初始的 系统，我们在下一个资金阶段的目标是快速发展NDX网络内容和 社区以及这些资源影响癌症研究和治疗的手段。在……里面 特别是，我们将(1)将NDeX网络连接到下一代癌症基因组分析；(2) 允许在期刊网站上直接发布互动网络；(3)开发标志 通过社会组织和自动化提供癌症途径内容；以及(4)扩展NDeX 支持不断增长的用户和分析工具社区的框架。通过这些目标， NDeX项目的重点从核心基础设施过渡到基因组分析工作流， 与癌症相关的网络内容、出版和社区建设。这些发展解决了 癌症研究对能够分析基因组规模的网络基础设施的迫切需求 分子网络背景下的信息。