Abstract
In sequencing by hybridization (SBH), one has to reconstruct a sequence from its k-long substrings. SBH was proposed as a promising alternative to gel-based DNA sequencing approaches, but in its original form the method is not competitive. Positional SBH is a recently proposed enhancement of SBH in which one has additional information about the possible positions of each substring along the target sequence. We give a linear time algorithm for solving the positional SBH problem when each substring has at most two possible positions. On the other hand, we prove that the problem is NP-complete if each substring has at most three possible positions.
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Ben-Dor, A., Pe’er, I., Shamir, R., Sharan, R. (1999). On the Complexity of Positional Sequencing by Hybridization. In: Crochemore, M., Paterson, M. (eds) Combinatorial Pattern Matching. CPM 1999. Lecture Notes in Computer Science, vol 1645. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-48452-3_7
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DOI: https://doi.org/10.1007/3-540-48452-3_7
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