Combining markers into haplotypes can improve population structure inference

LM Gattepaille, M Jakobsson - Genetics, 2012 - academic.oup.com
High-throughput genotyping and sequencing technologies can generate dense sets of
genetic markers for large numbers of individuals. For most species, these data will contain …

Population structure with localized haplotype clusters

SR Browning, BS Weir - Genetics, 2010 - academic.oup.com
We propose a multilocus version of F ST and a measure of haplotype diversity using
localized haplotype clusters. Specifically, we use haplotype clusters identified with BEAGLE …

Understanding the accuracy of statistical haplotype inference with sequence data of known phase

AM Andrés, AG Clark, L Shimmin… - … Official Publication of …, 2007 - Wiley Online Library
Statistical methods for haplotype inference from multi‐site genotypes of unrelated
individuals have important application in association studies and population genetics …

Detecting disease associations due to linkage disequilibrium using haplotype tags: a class of tests and the determinants of statistical power

JM Chapman, JD Cooper, JA Todd, DG Clayton - Human heredity, 2003 - karger.com
In the 'indirect'method of detecting genetic associations between a trait and a DNA variant,
we type several markers in a gene or chromosome region of linkage disequilibrium. If there …

Efficient selective screening of haplotype tag SNPs

X Ke, LR Cardon - Bioinformatics, 2003 - academic.oup.com
Abstract: Haplotypes defined by common single nucleotide polymorphisms (SNPs) have
important implications for mapping of disease genes and human traits. Often only a small …

[HTML][HTML] Comparisons of two methods for haplotype reconstruction and haplotype frequency estimation from population data

S Zhang, AJ Pakstis, KK Kidd, H Zhao - The American Journal of Human …, 2001 - cell.com
Haplotype reconstruction is an important issue, both in population genetics and in the
identification of complex disease genes. Stephens et al.(2001) proposed a new statistical …

Use of unphased multilocus genotype data in indirect association studies

D Clayton, J Chapman, J Cooper - Genetic Epidemiology: The …, 2004 - Wiley Online Library
It is usually assumed that detection of a disease susceptability gene via marker
polymorphisms in linkage disequilibrium with it is facilitated by consideration of marker …

The portability of tagSNPs across populations: a worldwide survey

A González-Neira, X Ke, O Lao, F Calafell… - Genome …, 2006 - genome.cshlp.org
In the search for common genetic variants that contribute to prevalent human diseases,
patterns of linkage disequilibrium (LD) among linked markers should be considered when …

[HTML][HTML] Methods for the selection of tagging SNPs: a comparison of tagging efficiency and performance

K Ding, IJ Kullo - European Journal of Human Genetics, 2007 - nature.com
There is great interest in the use of tagging single nucleotide polymorphisms (tSNPs) to
facilitate association studies of complex diseases. This is based on the premise that a …

[HTML][HTML] Matching strategies for genetic association studies in structured populations

DA Hinds, RP Stokowski, N Patil, K Konvicka… - The American Journal of …, 2004 - cell.com
Association studies in populations that are genetically heterogeneous can yield large
numbers of spurious associations if population subgroups are unequally represented …