NDLI: Efficient multipoint mapping: making use of dominant repulsion-phase markers

Content Provider	Springer Nature Link
Author	Mester, D. I. Ronin, Y. I. Hu, Y. Peng, J. Nevo, E. Korol, A. B.
Copyright Year	2003
Abstract	The paper is devoted to the problem of multipoint gene ordering with a particular focus on "dominance" complication that acts differently in conditions of coupling-phase and repulsion-phase markers. To solve the problem we split the dataset into two complementary subsets each containing shared codominant markers and dominant markers in the coupling-phase only. Multilocus ordering in the proposed algorithm is based on pairwise recombination frequencies and using the well-known travelling salesman problem (TSP) formalization. To obtain accurate results, we developed a multiphase algorithm that includes synchronized-marker ordering of two subsets assisted by re-sampling-based map verification, combining the resulting maps into an integrated map followed by verification of the integrated map. A new synchronized Evolution-Strategy discrete optimization algorithm was developed here for the proposed multilocus ordering approach in which common codominant markers facilitate stabilization of the marker order of the two complementary maps. High performance of the employed algorithm allows systematic treatment for the problem of verification of the obtained multilocus orders, based on computing-intensive bootstrap and jackknife technologies for detection and removing unreliable marker scores. The efficiency of the proposed algorithm was demonstrated on simulated and real data.
Starting Page	1102
Ending Page	1112
Page Count	11
File Format	PDF
ISSN	00405752
Journal	Theoretical and Applied Genetics
Volume Number	107
Issue Number	6
e-ISSN	14322242
Language	English
Publisher	Springer-Verlag
Publisher Date	2003-08-20
Publisher Place	Berlin/Heidelberg
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Multilocus ordering Synchronized optimization algorithm Dominant marker Repulsion phase Bootstrap
Content Type	Text
Resource Type	Article
Subject	Genetics Medicine Biotechnology Agronomy and Crop Science

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