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A private DNA motif finding algorithm
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DOI：10.1016/j.jbi.2013.12.016.png)
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With the increasing availability of genomic sequence data, numerous methods have been proposed for finding DNA motifs. The discovery of DNA motifs serves a critical step in many biological applications. However, the privacy implication of DNA analysis is normally neglected in the existing methods. In this work, we propose a private DNA motif finding algorithm in which a DNA owner's privacy is protected by a rigorous privacy model, known as epsilon-differential privacy. It provides provable privacy guarantees that are independent of adversaries' background knowledge. Our algorithm makes use of the n-gram model and is optimized for processing large-scale DNA sequences. We evaluate the performance of our algorithm over real-life genomic data and demonstrate the promise of integrating privacy into DNA motif finding. (C) 2014 Elsevier Inc. All rights reserved.
Keyword:
Motif finding
Privacy protection
epsilon-Differential privacy
n-gram model
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