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Large Scale Matching for Position Weight Matrices

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Combinatorial Pattern Matching (CPM 2006)

Part of the book series: Lecture Notes in Computer Science ((LNTCS,volume 4009))

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This paper addresses the problem of multiple pattern matching for motifs encoded by Position Weight Matrices. We first present an algorithm that uses a multi-index table to preprocess the set of motifs, allowing a dramatically decrease of computation time. We then show how to take benefit from simlar motifs to prevent useless computations.

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© 2006 Springer-Verlag Berlin Heidelberg

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Liefooghe, A., Touzet, H., Varré, JS. (2006). Large Scale Matching for Position Weight Matrices. In: Lewenstein, M., Valiente, G. (eds) Combinatorial Pattern Matching. CPM 2006. Lecture Notes in Computer Science, vol 4009. Springer, Berlin, Heidelberg.

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-35455-0

  • Online ISBN: 978-3-540-35461-1

  • eBook Packages: Computer ScienceComputer Science (R0)

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