来自多来源长期观测的数据共享和互操作性:海洋生物学的挑战和机遇

Mara Sangiovanni, R. Piredda, Marco Miralto, M. Tangherlini, M. Chiusano
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引用次数: 0

摘要

长期观测站在海洋科学中被广泛用于监测海洋生态系统并研究其演变。最近,除了物理、生物地球化学和分类学信息外,还收集了来自创新技术和“基于组学”方法的数据。它们的集成代表了一个具有挑战性的机会,推动了数据检索、存储、互操作性、可重用性和共享的合适计算方法。一些倡议正在解决这些问题,提出最适当和最敏感的战略和协议。在设计存储和共享收集到的信息的工具时,确保不同来源之间的互操作性和提供无缝的数据访问是必不可少的。在此,我们介绍了我们为长期生态系统研究(LTER)开发网络可访问资源的努力,考虑到现有的协议和接近适当的软件解决方案:i)收集和整合实时环境和生物观测与组学数据;ii)利用国际上已建立的数据格式和协议,通过RESTful api公开所收集的数据;Iii)通过交互式的、可通过网络访问的资源访问集合,以允许聚合视图。这项工作的目的是加强安东·多恩动物园作为地中海海洋观测站的领导地位,并为海洋生物学的下一个时代的挑战做好准备。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Data sharing and interoperability from multi-source long term observations: challenges and opportunities in marine biology
Long-term observatories are widely used in marine sciences to monitor marine ecosystems and investigate their evolution. Recently, data from innovative technologies as well as ‘omics-based' approaches is being collected alongside physical, biogeochemical and taxonomic information. Their integration represents a challenging opportunity, pushing for suitable computational approaches to for data retrieval, storage, interoperability, reusability and sharing. Several initiatives are addressing these issues, suggesting the most appropriate and sensitive strategies and protocols. Ensuring interoperability among different sources and providing seamless data access is essential when designing tools to store and share the collected information.Here we present our effort in the development of web-accessible resources for Long-Term Ecosystem Research (LTER), taking into account available protocols and approaching appropriate software solutions for: i) collecting and integrating real-time environmental and biological observations with -omics data; ii) exploiting international established data formats and protocols to expose through RESTful APIs the collected data; iii) accessing the collections through an interactive, web-accessible resource to permit aggregated views.The aim of this effort is to reinforce the leadership of the Stazione Zoologica “Anton Dohrn” as a Mediterranean Sea marine observatory, and to be ready for the next era challenges in marine biology.
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