Predicting vertebrate promoters using heterogeneous clusters. (1st October 2010)

• Record Type: Journal Article
• Authors: Leu, Fang-Yie; Yang, Lun-Ni; Lo, Neng-Wen; Lin, I-Long
• Is Part Of: International journal of ad hoc and ubiquitous computing. Volume 6:Number 4(2010)
• Page Start: 216
• Page End: 234
• Publication Date: 2010-10-01
• Subjects: bioinformatics -- cluster computing -- k-gram -- promoter prediction -- performance improvement -- vertebrate promoters -- clustering database -- transcription factor -- binding site -- transcription start site -- heterogeneous clusters; Ubiquitous computing -- Periodicals; Embedded computer systems -- Periodicals; Electronic data processing -- Distributed processing -- Periodicals; Wireless communication systems -- Periodicals; Computer architecture -- Periodicals; 004.2
• Languages: English
• ISSNs: 1743-8225

Abstract

This paper proposes a system, named the Vertebrate Promoter Prediction System (VePPS), which employs a new statistics-based approach to predict vertebrate promoters, and analyses a putative promoter sequence by investigating the presence of short promoter-specific sequences and known transcription factor binding sites. In comparison with other prediction programmes, our VePPS outperformed, e.g., promoter 2.0, by 38.0% and 12.7% in predicting promoter and non-promoter sequences, respectively.