Combined Use of k-Mer Numerical Features and Position-Specific Categorical Features in Fixed-Length DNA Sequence Classification

• 作者: Bahriddin Abapihi Bedy Purnama Dau Phan Favorisen Rosyking Lumbanraja Kenji Satou Mamoru Kubo Mera Kartika Delimayanti Mohammad Reza Faisal Ngoc Giang Nguyen
• 来源期刊: 生物医学工程(英文)
• 学科: 医学
• 关键词: Sequence CLASSIFICATION NUMERICAL and CATEGORICAL FEATURES Feature Selection
• 年，卷（期）: swyxgcyw_2017,（8）
• 页码范围: 390-401
• 页数: 12页
• 分类号: R73

摘要

To classify DNA sequences, k-mer frequency is widely used since it can convert variable-length sequences into fixed-length and numerical feature vectors. However, in case of fixed-length DNA sequence classification, subsequences starting at a specific position of the given sequence can also be used as categorical features. Through the performance evaluation on six datasets of fixed-length DNA sequences, our algorithm based on the above idea achieved comparable or better performance than other state-of-the art algorithms.