Year: 2016
Type: preprint
Abstract: We characterize the complexity of the PATS problem for patterns of fixed height and color count in variants of the model where seed glues are either chosen or fixed and identical (so-called non-uniform and uniform variants). We prove that both variants are NP-complete for patterns of height 2 or more and admit O(n)-time algorithms for patterns of height 1. We also prove that if the height and number of colors in the pattern is fixed, the non-uniform variant admits a O(n)-time algorithm while the uniform variant remains NP-complete. The NP-completeness results use a new reduction from a constrained version of a problem on finite state transducers.
Source: arXiv (Cornell University)
Authors: Seki, Shinnosuke, Winslow, Andrew
Language: English
Topic: DNA and Biological Computing
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W2952289723