Cytoscape: A Modeling Platform for Biomolecular Networks

CytoSCAPE：生物分子网络建模平台 行政补充申请将R01 HG009979延期一年(7/1/21至6/30/22) 少年派：Trey Ideker(加州大学圣地亚哥分校) 项目摘要 Cytoscape是一个用于生物网络分析、可视化和建模的开源软件平台。它是 学术界和工业界的关键生物信息学资源，每年有30万多次下载和25,000多次下载 引文。细胞角蛋白已被广泛采用，主要是因为它在各种生物分析中的应用，其 可持续的开放发展模式及其可扩展的架构，使任何人都可以添加算法 功能，并吸引了数百名第三方开发人员。访问网络分析工具的权限为 在网络知识和概念日益成为 基因组学研究。Cytoscape满足了这一需求，并成为基于知识的基因组的枢纽 分析。 在这份行政补充申请中，我们请求额外拨款，以允许一年的 延长当前赠款的预算期(R01 HG009979)。这些过渡性资金将使继续 维护和传播工具的细胞景观生态系统，同时我们的U24基因组社区 资源申请仍在审查中(U24 HG012107,2021年5月25日重新提交)。申请的586,000美元 总费用是比目前的赔偿额和维持、支助和 在其间逐步更新广泛使用的Cytoscape平台。这些基金还将 留住我们高度专业化的Cytoscape开发团队。 在这项为期一年的追加拨款申请中，我们建议： 1.继续我们长期致力于维护、更新和分发Cytoscape工具生态系统。 2.进一步开发基于Web和云的Cytoscape版本、Cytoscape Explore，并使用 基本的Cytoscape Desktop功能。 3.继续我们丰富的Cytoscape外展和培训计划。

CYTOSCAPE: A MODELING PLATFORM FOR BIOMOLECULAR NETWORKS Administrative supplement request to extend R01 HG009979 for a period of one year (7/1/21 to 6/30/22) PI: Trey Ideker (University of California San Diego) Project Summary Cytoscape is an open source software platform for biological network analysis, visualization and modeling. It is a critical bioinformatics resource in academia and industry, with 300,000+ downloads per year and 25,000+ citations. Cytoscape has been widely adopted due mainly to its utility in diverse biological analyses, its sustainable open development model, and its extensible architecture, which enables anyone to add algorithmic functionality and has attracted hundreds of third-party developers. Access to network analysis tools is particularly important now, at a time when network knowledge and concepts are increasingly central to genomics research. Cytoscape addresses this need and serves as a hub for knowledge-based genome analysis. Here in this administrative supplement application, we are requesting additional funds to permit a one-year extension to the budget period of the current grant (R01 HG009979). These bridge funds will enable continued maintenance and dissemination of the Cytoscape ecosystem of tools while our U24 Genomic Community Resource application is still under review (U24 HG012107, resubmission May 25, 2021). The requested $586K in total costs is a reduction from the current award and the base amount required to maintain, support and incrementally update the widely used Cytoscape platform during the intervening period. These funds will also serve to retain our highly specialized Cytoscape development team. With this one-year supplemental funding request, we propose to: 1. Continue our longtime commitment to maintain, update and distribute the Cytoscape ecosystem of tools. 2. Further develop a web- and cloud-based version of Cytoscape, Cytoscape Explore, and release v1.0 with basic Cytoscape Desktop functionality. 3. Continue our rich set of Cytoscape outreach and training programs.