Soldatova Larisa N, Aubrey Wayne, King Ross D, Clare Amanda
Department of Computer Science, Aberystwyth University, Penglais, Aberystwyth, SY23 3DB, Wales, UK.
Bioinformatics. 2008 Jul 1;24(13):i295-303. doi: 10.1093/bioinformatics/btn156.
Many published manuscripts contain experiment protocols which are poorly described or deficient in information. This means that the published results are very hard or impossible to repeat. This problem is being made worse by the increasing complexity of high-throughput/automated methods. There is therefore a growing need to represent experiment protocols in an efficient and unambiguous way.
We have developed the Experiment ACTions (EXACT) ontology as the basis of a method of representing biological laboratory protocols. We provide example protocols that have been formalized using EXACT, and demonstrate the advantages and opportunities created by using this formalization. We argue that the use of EXACT will result in the publication of protocols with increased clarity and usefulness to the scientific community.
The ontology, examples and code can be downloaded from http://www.aber.ac.uk/compsci/Research/bio/dss/EXACT/.
许多已发表的手稿包含描述不佳或信息不足的实验方案。这意味着已发表的结果很难或无法重复。高通量/自动化方法日益复杂，使这个问题变得更糟。因此，越来越需要以高效且明确的方式表示实验方案。
我们开发了实验行动（EXACT）本体，作为表示生物学实验室方案方法的基础。我们提供了使用EXACT形式化的示例方案，并展示了使用这种形式化所带来的优势和机会。我们认为，使用EXACT将使方案的发表对科学界而言更加清晰且有用。
本体、示例和代码可从http://www.aber.ac.uk/compsci/Research/bio/dss/EXACT/下载。
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