Document Detail


Locus ordering based on crossover information in family haplotypes: application of a "minimum break" algorithm.
MedLine Citation:
PMID:  11793739     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
A "minimum break" method, previously applied to radiation hybrid data, is applied to the Genetic Analysis Workshop 12 simulated family data to assess the method's feasibility for ordering dense markers that have been typed in a set of pedigrees of three or more generations. Ordering is based on minimizing the total number of crossovers ("breaks") in a set of haplotypes where allele origin can be assigned to each specific haplotype, but locus order is unknown. It is shown that, for average locus spacing of about 2 cM and a set of 300 to 600 haplotypes, locus ordering can be reliably determined for sets of at least 50 loci. However, in the absence of crossovers between some pairs (sets) of loci, no unique order can be identified and sets of orders that are equally likely will be recovered. The method presented can be used to obtain reasonable sets of ordered loci that can then be used by other methods to refine the statistical confidence of the locus order.
Authors:
C T Falk
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Publication Detail:
Type:  Journal Article; Research Support, U.S. Gov't, P.H.S.    
Journal Detail:
Title:  Genetic epidemiology     Volume:  21 Suppl 1     ISSN:  0741-0395     ISO Abbreviation:  Genet. Epidemiol.     Publication Date:  2001  
Date Detail:
Created Date:  2002-01-16     Completed Date:  2002-04-15     Revised Date:  2007-11-14    
Medline Journal Info:
Nlm Unique ID:  8411723     Medline TA:  Genet Epidemiol     Country:  United States    
Other Details:
Languages:  eng     Pagination:  S565-70     Citation Subset:  IM    
Affiliation:
New York Blood Center, 310 E. 67th St., New York, NY 10021, USA.
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MeSH Terms
Descriptor/Qualifier:
Algorithms
Chromosome Breakage
Chromosome Mapping / statistics & numerical data*
Chromosomes, Human, Pair 1
Crossing Over, Genetic*
Genetic Markers / genetics*
Haplotypes / genetics*
Humans
Models, Genetic*
Grant Support
ID/Acronym/Agency:
GM29177/GM/NIGMS NIH HHS
Chemical
Reg. No./Substance:
0/Genetic Markers

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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