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Applying a text mining framework to the extraction of numerical parameters from scientific literature in the biotechnology domain

机译:将文本挖掘框架应用于从生物技术领域的科学文献中提取数值参数

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摘要

Scientific publications are the main vehicle to disseminate information in the field of biotechnology for wastewater treatment. Indeed, the new research paradigms and the application of high-throughput technologies have increased the rate of publication considerably. The problem is that manual curation becomes harder, prone-to-errors and time-consuming, leading to a probable loss of information and inefficient knowledge acquisition. As a result, research outputs are hardly reaching engineers, hampering the calibration of mathematical models used to optimize the stability and performance of biotechnological systems. In this context, we have developed a data curation workflow, based on text mining techniques, to extract numerical parameters from scientific literature, and applied it to the biotechnology domain. A workflow was built to process wastewater-related articles with the main goal of identifying physico-chemical parameters mentioned in the text. This work describes the implementation of the workflow, identifies achievements and current limitations in the overall process, and presents the results obtained for a corpus of 50 full-text documents.
机译:科学出版物是传播用于废水处理的生物技术领域信息的主要工具。实际上,新的研究范式和高通量技术的应用大大提高了发表率。问题是手动管理变得更加困难,容易出错并且耗时,导致信息丢失和知识获取效率低下。结果,研究成果几乎没有到达工程师手中,这妨碍了用于优化生物技术系统稳定性和性能的数学模型的校准。在这种情况下,我们已经开发了一种基于文本挖掘技术的数据管理工作流,以从科学文献中提取数值参数,并将其应用于生物技术领域。建立了一个工作流程来处理与废水有关的物品,其主要目的是确定本文中提到的理化参数。这项工作描述了工作流的实现,确定了整个过程中的成就和当前的局限性,并介绍了从50个全文本文档集中获得的结果。

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