# Combinatorial optimization in DNA mapping — a computational thread of the Simplified Partial Digest Problem

Jacek Blazewicz; Marta Kasprzak

RAIRO - Operations Research (2006)

- Volume: 39, Issue: 4, page 227-241
- ISSN: 0399-0559

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topBlazewicz, Jacek, and Kasprzak, Marta. "Combinatorial optimization in DNA mapping — a computational thread of the Simplified Partial Digest Problem." RAIRO - Operations Research 39.4 (2006): 227-241. <http://eudml.org/doc/105331>.

@article{Blazewicz2006,

abstract = {
In the paper, the problem of the genome mapping of DNA molecules, is presented. In particular, the new approach — the Simplified Partial Digest Problem (SPDP), is analyzed. This approach, although easy in laboratory implementation and robust with respect to measurement errors, when formulated in terms of a combinatorial search problem, is proved to be strongly NP-hard for the general error-free case. For a subproblem of the SPDP, a simple O(nlogn)-time algorithm is given, where n is a number of restriction sites.
},

author = {Blazewicz, Jacek, Kasprzak, Marta},

journal = {RAIRO - Operations Research},

keywords = {Combinatorial optimization; DNA restriction mapping; partial digest; computational complexity.; combinatorial optimization; computational complexity},

language = {eng},

month = {4},

number = {4},

pages = {227-241},

publisher = {EDP Sciences},

title = {Combinatorial optimization in DNA mapping — a computational thread of the Simplified Partial Digest Problem},

url = {http://eudml.org/doc/105331},

volume = {39},

year = {2006},

}

TY - JOUR

AU - Blazewicz, Jacek

AU - Kasprzak, Marta

TI - Combinatorial optimization in DNA mapping — a computational thread of the Simplified Partial Digest Problem

JO - RAIRO - Operations Research

DA - 2006/4//

PB - EDP Sciences

VL - 39

IS - 4

SP - 227

EP - 241

AB -
In the paper, the problem of the genome mapping of DNA molecules, is presented. In particular, the new approach — the Simplified Partial Digest Problem (SPDP), is analyzed. This approach, although easy in laboratory implementation and robust with respect to measurement errors, when formulated in terms of a combinatorial search problem, is proved to be strongly NP-hard for the general error-free case. For a subproblem of the SPDP, a simple O(nlogn)-time algorithm is given, where n is a number of restriction sites.

LA - eng

KW - Combinatorial optimization; DNA restriction mapping; partial digest; computational complexity.; combinatorial optimization; computational complexity

UR - http://eudml.org/doc/105331

ER -

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