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Updated: Jun 8, 2026

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
Published on: May 31, 2011
An improved heuristic algorithm for finding motif signals in DNA sequences
Chao-Wen Huang1, Wun-Shiun Lee, Sun-Yuan Hsieh
1Department of Computer Science and Information Engineering, National Cheng Kung University, No. 1, University Road, Tainan 70101, Taiwan. huangcw@csie.ncku.edu.tw
Abstract:
The planted (l, d)-motif search problem is a mathematical abstraction of the DNA functional site discovery task. In this paper, we propose a heuristic algorithm that can find planted (l, d)-signals in a given set of DNA sequences. Evaluations on simulated data sets demonstrate that the proposed algorithm outperforms current widely used motif finding algorithms. We also report the results of experiments on real biological data sets.
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