通过深度学习增强DNA序列的分类学分类:一种多标签方法
Prommy Sultana Hossain1, Kyungsup Kim2, Jia Uddin3
1Computer Science, George Mason University, Fairfax, VA 22030, USA.
Bioengineering (Basel, Switzerland)
|November 25, 2023
概括
深度学习模型使用变异卷积自编码器 (VCAE) 和多标签极端学习机器 (MLELM) 准确地分类DNA序列. 结合多个标签,如类和家族,显著提高了分类学分类准确度94%.
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
- 机器学习 机器学习
背景情况:
- 对DNA序列进行准确的分类对生物学研究至关重要.
- 传统的方法可能会与基因组数据的复杂性和规模作斗争.
- 深度学习为增强序列分析和分类提供了潜力.
研究的目的:
- 研究深度学习在DNA序列分类学分类中的应用.
- 提出和评估两个新的深度学习架构:堆叠卷积自编码器 (SCAE) -MLELM和变量卷积自编码器 (VCAE) -MLELM.
- 评估结合多个分类学标签对分类准确性的影响.
主要方法:
- 开发用于特征提取和分类的SCAE-MLELM和VCAE-MLELM架构.
- 使用多标签极端学习机器 (MLELM) 来处理提取的特征并生成分类分数.
- 在无监督DNA序列数据上培训和测试模型,同时考虑单个和多个标签.
主要成果:
- 在所有测试条件下,VCAE-MLELM模型的表现始终优于SCAE-MLELM模型.
- 与类或属标签相比,纳入类标签显著提高了两种模型的准确性.
- 使用VCAE-MLELM模型与结合类和家族标签的最高准确度为94%.
- 两种模型的单一标签分类准确率均低于65%.
结论:
- 深度学习模型,特别是VCAE-MLELM,显示出精确的DNA序列分类学分类的巨大潜力.
- 结合多个分类学标签 (例如,类,家族) 对于最大限度地提高分类性能至关重要.
- MLELM网络捕获类间模式的能力是该方法在生物分类学中的有效性的关键.
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