Get 20M+ Full-Text Papers For Less Than $1.50/day. Start a 14-Day Trial for You or Your Team.

Learn More →

A study comparing precision of the maximum multipoint heterogeneity LOD statistic to three model‐free multipoint linkage methods

A study comparing precision of the maximum multipoint heterogeneity LOD statistic to three... This study compared the performance of the maximum lod (MLOD), maximum heterogeneity lod (MHLOD), maximum non‐parametric linkage score (MNPL), maximum Kong and Cox linear extension (MKClin) of NPL, and maximum Kong and Cox exponential extension (MKCexp) of NPL as calculated in Genehunter 1.2 and Genehunter‐Plus. Our performance measure was the distance between the marker with maximum value for each linkage statistic and the trait locus. We performed a simulation study considering: 1) four modes of transmission, 2) 100 replicates for each model, 3) 58 pedigrees (with 592 subjects) per replicate, 4) three linked marker loci each having three equally frequent alleles, and 5) either 0% unlinked families (linkage homogeneity) or 50% unlinked families (linkage heterogeneity). For each replicate, we obtained the Haldane map position of the location at which each of the five statistics is maximized. The MLOD and MHLOD were obtained by maximizing over penetrances, phenocopy rate, and risk‐allele frequencies. For the models simulated, MHLOD appeared to be the best statistic both in terms of identifying a marker locus having the smallest mean distance from the trait locus and in terms of the strongest negative correlation between maximum linkage statistic and distance of the identified position and the trait locus. The marker loci with maximum value of the Kong and Cox extensions of the NPL statistic also were closer to the trait locus than the marker locus with maximum value of the NPL statistic. Genet. Epidemiol. 21:315–325, 2001. © 2001 Wiley‐Liss, Inc. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Genetic Epidemiology Wiley

A study comparing precision of the maximum multipoint heterogeneity LOD statistic to three model‐free multipoint linkage methods

Download PDF
11 pages

Loading next page...
 
/lp/wiley/a-study-comparing-precision-of-the-maximum-multipoint-heterogeneity-Qj2SrSF08m

References (27)

Publisher
Wiley
Copyright
Copyright © 2001 Wiley‐Liss, Inc.
ISSN
0741-0395
eISSN
1098-2272
DOI
10.1002/gepi.1037
pmid
11754467
Publisher site
See Article on Publisher Site

Abstract

This study compared the performance of the maximum lod (MLOD), maximum heterogeneity lod (MHLOD), maximum non‐parametric linkage score (MNPL), maximum Kong and Cox linear extension (MKClin) of NPL, and maximum Kong and Cox exponential extension (MKCexp) of NPL as calculated in Genehunter 1.2 and Genehunter‐Plus. Our performance measure was the distance between the marker with maximum value for each linkage statistic and the trait locus. We performed a simulation study considering: 1) four modes of transmission, 2) 100 replicates for each model, 3) 58 pedigrees (with 592 subjects) per replicate, 4) three linked marker loci each having three equally frequent alleles, and 5) either 0% unlinked families (linkage homogeneity) or 50% unlinked families (linkage heterogeneity). For each replicate, we obtained the Haldane map position of the location at which each of the five statistics is maximized. The MLOD and MHLOD were obtained by maximizing over penetrances, phenocopy rate, and risk‐allele frequencies. For the models simulated, MHLOD appeared to be the best statistic both in terms of identifying a marker locus having the smallest mean distance from the trait locus and in terms of the strongest negative correlation between maximum linkage statistic and distance of the identified position and the trait locus. The marker loci with maximum value of the Kong and Cox extensions of the NPL statistic also were closer to the trait locus than the marker locus with maximum value of the NPL statistic. Genet. Epidemiol. 21:315–325, 2001. © 2001 Wiley‐Liss, Inc.

Journal

Genetic Epidemiology – Wiley

Published: Dec 1, 2001

Keywords: multipoint linkage; power; parametric; non‐parametric; lod; heterogeneity lod; localization; precision

There are no references for this article.