PGCNMDA:学习节点表示沿路径与图形卷积网络来预测miRNA-疾病关联
Shuang Chu1, Guihua Duan2, Cheng Yan1
1School of Informatics, Hunan University of Chinese Medicine, Changsha 410208, China.
Methods (San Diego, Calif.)
|June 23, 2024
概括
我们开发了PGCNMDA,这是一种使用图形卷积网络来预测miRNA-疾病关联的新计算方法. 这种方法提高了准确性,通过识别与各种疾病相关的关键微RNA来帮助诊断和治疗疾病.
科学领域:
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
- 基因组学就是基因组学.
背景情况:
- 识别微RNA-疾病关联 (MDA) 对疾病诊断和治疗至关重要.
- 用于MDA识别的实验方法是昂贵和耗时的.
- 计算方法,特别是图形卷积网络 (GCNs),显示出对MDA预测的希望.
研究的目的:
- 提出一种新的计算方法,PGCNMDA,用于增强推断miRNA-疾病关联.
- 通过从路径中学习空间运算符来利用GCN来改进MDA预测.
- 在实际应用中验证PGCNMDA的有效性和可行性.
主要方法:
- 开发了PGCNMDA,一种使用图形卷积网络 (GCNs) 的方法.
- 整合了一个学习图形空间运算符,该运算符来自GCN框架内的路径.
- 在HMDD v2.0和HMDD v3.2数据集上使用5倍交叉验证 (5-CV),10倍交叉验证 (10-CV) 和全局离开一次的交叉验证 (GLOOCV) 评估了PGCNMDA性能.
主要成果:
- 在HMDD v2.0.0.上,PGCNMDA实现了高性能,AUC约为0.923左右,AUPRC约为0.921左右.
- 在HMDD v3.2上,PGCNMDA表现出卓越的性能,AUC约为0.941和AUPRC约为0.942.
- 案例研究证实了高百分比 (高达50/50) 的最高预测miRNA疾病链接胰腺瘤,甲状腺瘤和白血病.
结论:
- 在预测miRNA与疾病的关联方面,PGCNMDA显著优于现有的方法.
- 从路径学习空间运算符的新方法提高了GCN对MDA推断的性能.
- 在疾病诊断和治疗开发中,PGCNMDA显示出强大的实际应用潜力.
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