BioPAX - Biological Pathway Community Workshop

BioPAX - 生物途径社区研讨会

• 批准号: 7357489
• 负责人: CHRIS SANDER
• 金额: $ 1万
• 依托单位: SLOAN-KETTERING INST CAN RESEARCH
• 依托单位国家: 美国
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-01-10 至 2009-12-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7357489
• 关键词: Adopted; Adoption; Alcohols; Binding; Biological; Biological Models; Biological Process; Biology; Class; Communities; Community Developments; Community Participation; Computer software; DNA; Data; Databases; Development; Educational workshop; Fees; Funding; Future; Genbank; Gene Expression Regulation; Generic Drugs; Genes; Genetic; Genetic Epistasis; Genus Mentha; Goals; Growth; Imagery; Information Systems; Language; Lead; Licensing; Location; Maps; Memorial Sloan-Kettering Cancer Center; Metabolic Pathway; Modeling; Molecular; National Institute of General Medical Sciences; New York; Participant; Pathway interactions; Phosphotransferases; Post-Translational Protein Processing; Problem Solving; Process; Research; Resources; Series; Signal Pathway; Signaling Pathway Gene; Software Tools; Standards of Weights and Measures; System; Systems Biology; Time; Training; Wit; Work; base; biological research; cost; data integration; data modeling; day; interest; mathematical model; member; news; open source; symposium; tool; transcription factor

Pathway information is vital for understanding biological systems. Unfortunately,the over 170 online pathway data resourcesvary widely in coverage and representation of biological processes, making their use for biological problem solving extremely difficult. The BioPAX groupwas formed by the pathway database community in November 2002 to develop a standard biological pathway data exchangeformat to solve this issue through a series of small workshops. This has resulted in the development of the community accepted, open-source BioPAX level 1 exchange format, which supports metabolic pathway data and BioPAX level 2, which adds support for molecular interaction data. We seek support for a workshop series for the years 2006, 2007 and 2008. The goals of this meeting series are to expandthe BioPAX data model by adding support for signaling pathways, gene regulation networks and genetic interactions, such as epistasis; to increase database and tool support for.BioPAX; and to encourage the growth of publicly accessible pathway data and its application to biological problems. We propose to hold BioPAX workshops twice a year, each lasting two days. These will focus on achieving our goals through BioPAX data model and community development discussions. One workshop per year will include a symposium of invited speakers discussing their pathway related computational research. Meetings will include ahackathon, where computer software, such as database converters, is collaboratively developed. Meetings will be hosted by participants and locationswill cycle through SRI, Menlo Park, CA (Peter Karp), Cold Spring Harbor Labs, New York, NY (Lincoln Stein) and Memorial-Sloan Kettering Cancer Center, New York, NY (Chris Sander) or other convenient US locations. All meetings will be open to community participation and all minutes and resulting work is freely available under open sourceterms via the www.biopax.org website.

通路信息对于理解生物系统至关重要。不幸的是，超过170在线 路径数据资源在生物过程的覆盖范围和表示方面差异很大，使得它们 用于解决生物学问题极其困难。 BioPAX 小组是通过以下途径形成的 数据库界于 2002 年 11 月制定了标准生物途径数据交换格式 通过一系列小型研讨会解决这个问题。这也促进了社区的发展 公认的开源 BioPAX 1 级交换格式，支持代谢途径数据和 BioPAX 2 级，增加了对分子相互作用数据的支持。我们寻求对研讨会系列的支持 2006 年、2007 年和 2008 年。本次会议系列的目标是扩展 BioPAX 数据模型 通过增加对信号通路、基因调控网络和遗传相互作用的支持，例如 上位性；增加对.BioPAX的数据库和工具支持；并鼓励公众的成长 可获取的途径数据及其在生物学问题中的应用。我们建议举办 BioPAX 研讨会 每年两次，每次持续两天。这些将侧重于通过 BioPAX 数据模型实现我们的目标 和社区发展讨论。每年一次的研讨会将包括受邀参加的研讨会 演讲者讨论与路径相关的计算研究。会议将包括黑客马拉松、 其中数据库转换器等计算机软件是协作开发的。会议将是 主办方和地点将循环通过 SRI、加利福尼亚州门洛帕克 (Peter Karp)、冷泉 纽约州纽约港实验室（林肯斯坦）和纽约州纽约纪念斯隆凯特琳癌症中心 （克里斯·桑德）或其他方便的美国地点。所有会议都将开放给社区参与 所有会议记录和由此产生的工作均可根据开源条款通过 www.biopax.org 网站免费获取。