### Abstract

Optical Mapping is a new technology for constructing restriction maps. Associated computational problems include aligning multiple partial restriction maps into a single `consensus' restriction map, and determining the correct orientation of each molecule, which was formalized as the Exclusive Binary Flip Cut (EBFC) Problem by Muthukrishnan and Parida. Here we prove that the EBFC problem, as well as a number of its variants, are NP-Complete. We also identify another problem formalized as Binary Shift Cut (BSC) problem motivated by the fact that there might be missing fragments at the beginnings and/or the ends of the molecules, and prove it to be NP-complete. Therefore, they do not have efficient, that is, polynomial time solutions unless P = NP.

Original language | English (US) |
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Pages | 275-284 |

Number of pages | 10 |

State | Published - Dec 1 1997 |

Event | Proceedings of the 1997 International Conference on Compression and Complexity of Sequences - Positano, Italy Duration: Jun 11 1997 → Jun 13 1997 |

### Conference

Conference | Proceedings of the 1997 International Conference on Compression and Complexity of Sequences |
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City | Positano, Italy |

Period | 6/11/97 → 6/13/97 |

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### ASJC Scopus subject areas

- Engineering(all)

### Cite this

*Hardness of flip-cut problems from optical mapping*. 275-284. Paper presented at Proceedings of the 1997 International Conference on Compression and Complexity of Sequences, Positano, Italy, .

**Hardness of flip-cut problems from optical mapping.** / Dancik, Vlado; Hannenhalli, Sridhar; Muthukrishnan, Shanmugavelayutham.

Research output: Contribution to conference › Paper

}

TY - CONF

T1 - Hardness of flip-cut problems from optical mapping

AU - Dancik, Vlado

AU - Hannenhalli, Sridhar

AU - Muthukrishnan, Shanmugavelayutham

PY - 1997/12/1

Y1 - 1997/12/1

N2 - Optical Mapping is a new technology for constructing restriction maps. Associated computational problems include aligning multiple partial restriction maps into a single `consensus' restriction map, and determining the correct orientation of each molecule, which was formalized as the Exclusive Binary Flip Cut (EBFC) Problem by Muthukrishnan and Parida. Here we prove that the EBFC problem, as well as a number of its variants, are NP-Complete. We also identify another problem formalized as Binary Shift Cut (BSC) problem motivated by the fact that there might be missing fragments at the beginnings and/or the ends of the molecules, and prove it to be NP-complete. Therefore, they do not have efficient, that is, polynomial time solutions unless P = NP.

AB - Optical Mapping is a new technology for constructing restriction maps. Associated computational problems include aligning multiple partial restriction maps into a single `consensus' restriction map, and determining the correct orientation of each molecule, which was formalized as the Exclusive Binary Flip Cut (EBFC) Problem by Muthukrishnan and Parida. Here we prove that the EBFC problem, as well as a number of its variants, are NP-Complete. We also identify another problem formalized as Binary Shift Cut (BSC) problem motivated by the fact that there might be missing fragments at the beginnings and/or the ends of the molecules, and prove it to be NP-complete. Therefore, they do not have efficient, that is, polynomial time solutions unless P = NP.

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M3 - Paper

SP - 275

EP - 284

ER -