myGrid: An OMII-UK Node (mymes: myGrid middleware for e-Scientists) (Services and Middleware for e-Science)

myGrid：OMII-UK 节点（mymes：面向电子科学家的 myGrid 中间件）（面向电子科学的服务和中间件）

• 批准号: EP/D044324/1
• 负责人: Carole Goble
• 金额: $ 265.21万
• 依托单位: University of Manchester
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2006
• 资助国家: 英国
• 起止时间: 2006 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=EP%2FD044324%2F1
• 关键词: myGrid; OMII; UK; Node; mymes

Progress in science is largely made through experiments, whereby the properties and behaviour of naturally occurring or manufactured artefacts are studied in a controlled environment. However, a single experiment normally only tells part of the overall story, and real improvements in understanding normally emerge by integrating and comparing the results of many experiments. As relevant experiments may be carried out at different places, be extremely numerous, and involve large amounts of data, it is likely that many potential discoveries are missed because of difficulties accessing and interpreting diverse experimental results. e-Science seeks to use computational tools to assist scientists in making sense of, rather than simply being intimidated by, the increasing amount of scientific data that is being produced in research labs throughout the world. e-Scientists need effective tools for accessing experimental data, analysing it, and for managing the results of these analyses, and linking them up with other scientists results. e-Science is a research area in its own right, in which techniques are explored for making sense of scientific data. The software used to make computers, databases, tools and people cooperate and hence run in-silico experiments is called middleware. The Open Middleware Infrastructure Institute (OMII) is an organisation that supplies middleware for scientists. It also collects it from other scientists to reengineer it to a high standard so people who didn't develop it can easily use it too. One of the long-established projects that have produced popular and useful middleware for Life Scientists (that is biologists, chemists, medics and so on) is myGrid. myGrid allows scientists to bring together existing globally shared or locally kept e-Science data sets and analyses to learn new lessons using workflows. There are over 1000 tools and data sets available that were not designed to work together. The workflows make them work together. These workflows can then be shared between scientists who want to do the same or adapt them, or want to understand how results were generated. myGrid stores the history of what happened in an in-silico experiment, why and how it was performed and by who (its provenance). It also helps manage and link up results and find other people's tools. It thus allows new hypotheses to be tested over existing experimental results, and supports scientists in managing and making sense of the results of these in-silico experiments. The alternative is to do this manually.myGrid has been very successful and has many users all over the world, in particular its workflow workbench Taverna. It turns out to be useful for many scientists other than Life Scientists. However, the software needs to be made more robust and easier to use, properly tested and documented, and extended in the light of early feedback by its users. By becoming part of the OMII-UK consortium, the myGrid middleware can looked after and developed to support its current users and many other scientists so they can confidently use it and rely on it. By close collaboration with OMII-UK: OGSA-DAI and the OMII Hub at Southampton, we can draw one each others experiences to strengthen our software engineering processes. myGrid can deliver scientists-oriented that use the low-level plumbing middleware of OMII. We will also develop distributed query technology to link our Taverna workflows with distributed queries from OGSA-DAI. In the longer term we will have a coordinated integrated roadmap of well-engineered e-Infrastructure for UK researchers and industry.

科学领域的进步主要是通过实验取得的，从而在受控环境中研究了自然存在或制造的人工制品的特性和行为。但是，一个实验通常只能说明整个故事的一部分，并且通过整合和比较许多实验的结果，通常会出现实际理解的实际改进。由于可能在不同的地方进行相关的实验，并且涉及大量数据，因此由于难以访问和解释多样化的实验结果，因此很可能会遗漏许多潜在的发现。电子科学试图使用计算工具来帮助科学家理解而不是简单地被全世界研究实验室中越来越多的科学数据吓倒。电子科学家需要有效的工具来访问实验数据，分析它以及管理这些分析的结果，并将其与其他科学家的结果联系起来。电子科学本身就是一个研究领域，在该领域中，探索了以了解科学数据的技术。用于制造计算机，数据库，工具和人员合作的软件，因此可以在内部实验进行运行。开放的中间件基础设施研究所（OMII）是一个为科学家提供中间件的组织。它还将其从其他科学家收集到高水平的高标准中，因此不开发它的人也可以轻松地使用它。 Mygrid是为生命科学家（即生物学家，化学家，医务人员等）生产出流行而有用的中间件的久远的项目之一。 Mygrid允许科学家将现有的全球共享或本地共享的电子科学数据集和分析汇总在一起，以使用工作流程学习新课程。有超过1000多个工具和数据集并非设计用于合作。工作流使它们一起工作。然后，这些工作流可以在想要做同样的科学家之间共享，或者想了解结果是如何产生的。 Mygrid存储了一项内部实验中发生的事情的历史，为什么以及如何执行（其出处）。它还有助于管理和链接结果并找到其他人的工具。因此，它允许对现有实验结果进行测试新假设，并支持科学家管理和理解这些内部实验实验的结果。替代方法是手动执行此操作。Mygrid非常成功，并且在世界各地拥有许多用户，尤其是其工作流工作台的Taverna。事实证明，除了生活科学家以外，许多科学家都有用。但是，需要使该软件更加健壮，更易于使用，适当测试和记录，并根据其用户的早期反馈进行扩展。通过成为OMII-UK财团的一部分，MyGrid中间件可以照顾并开发以支持其当前的用户和许多其他科学家，以便他们可以自信地使用它并依靠它。通过与OMII-UK的密切合作：OGSA-DAI和Southampton的Omii Hub，我们可以吸引每个人的体验来增强我们的软件工程流程。 Mygrid可以提供以科学家为导向的，这些科学家使用OMII的低级管道中间件。我们还将开发分布式查询技术，以将我们的Taverna工作流与OGSA-DAI的分布式查询联系起来。从长远来看，我们将为英国研究人员和行业提供精心设计的电子基础设施的协调综合路线图。

项目成果

Designing the myExperiment Virtual Research Environment for the Social Sharing of Workflows

• DOI: 10.1109/e-science.2007.29
• 发表时间: 2007-12
• 期刊: Third IEEE International Conference on e-Science and Grid Computing (e-Science 2007)
• 作者: D. D. Roure-D.;C. Goble;R. Stevens

Examining the challenges of scientific workflows

• DOI: 10.1109/mc.2007.421
• 发表时间: 2007-12-01
• 期刊: COMPUTER
• 影响因子: 2.2
• 作者: Gil, Yolanda;Deelman, Ewa;Myers, Jim
• 通讯作者: Myers, Jim

The Semantic Web - ISWC 2006

语义网 - ISWC 2006

• DOI: 10.1007/11926078_9
• 发表时间: 2006
• 作者: Belhajjame K

A systematic strategy for large-scale analysis of genotype phenotype correlations: identification of candidate genes involved in African trypanosomiasis.

• DOI: 10.1093/nar/gkm623
• 发表时间: 2007
• 期刊: Nucleic acids research
• 影响因子: 14.9
• 作者: Fisher P;Hedeler C;Wolstencroft K;Hulme H;Noyes H;Kemp S;Stevens R;Brass A
• 通讯作者: Brass A