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生物GSF:一个基于图形的语义特征集成框架,用于生物医学关系提取

Yang Yang^1,2,3, Zixuan Zheng³, Yuyang Xu³

¹Computing Science and Artificial Intelligence College, Suzhou City University, No. 1188 Wuzhong Avenue, Wuzhong District Suzhou, Suzhou 215004, China.

Briefings in bioinformatics

|January 24, 2025

概括

本研究介绍了BioGSF,这是一个新的基于图形的生物医学关系提取 (RE) 框架. 生物GSF提高了建立医疗知识图表的准确性和效率,用于医疗保健AI.

科学领域:

生物医学信息学生物医学信息学
医疗保健中的人工智能
自然语言处理自然语言处理.

背景情况:

准确的生物医学关系提取 (RE) 对医学知识图表和医疗保健AI至关重要.
使用预训练语言模型 (PLM) 的当前方法往往无法充分利用语义和拓特征.
需要更高效,更有效的可再生能源框架.

研究的目的:

介绍BioGSF,一个基于图形的生物医学RE框架.
改进RE中的语义和拓特征的利用.
为了提高医疗知识图表构建的性能和效率.

主要方法:

开发了BioGSF,集成最短的依赖路径 (SDP) 与使用图形神经网络的实体对图.
利用依赖关系来导出SDP并将其纳入实体对图.
采用图形注意力网络来获得拓信息,并将其与语义特征相结合,用于关系分类.

主要成果:

在S4和BioRED数据集上,BioGSF实现了卓越的性能,微F1得分分别为96.68%和96.03%.
与之前的模型相比,该框架的运行时间显著缩短.
生物GSF有效地整合了语义和拓信息,用于准确的关系分类.

结论:

生物GSF是生物医学关系提取的高效和高性能框架.
图形驱动的方法增强了医疗保健AI的医学知识图形的构建.
这种方法为推进自动化生物医学文本理解提供了一个有希望的方向.

关键词:

实体对对的图形图表.图表神经网络的神经网络关系提取关系提取最短的依赖路径

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Genome Annotation and Assembly

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The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.