Genetic association mapping at the crossroads: Which test and why? Overview and practical guidelines

2002 ◽  
Vol 114 (1) ◽  
pp. 1-11 ◽  
Author(s):  
Thomas G. Schulze ◽  
Francis J. McMahon
Keyword(s):  
Association Mapping ◽  
Genetic Association ◽  
Practical Guidelines ◽  
Genetic Association Mapping

scholarly journals Using the longest significance run to estimate region-specific p-values in genetic association mapping studies

2008 ◽  
Vol 9 (1) ◽  
pp. 246 ◽  
Author(s):  
Ie-Bin Lian ◽  
Yi-Hsien Lin ◽  
Ying-Chao Lin ◽  
Hsin-Chou Yang ◽  
Chee-Jang Chang ◽  
...  
Keyword(s):  
Association Mapping ◽  
Genetic Association ◽  
P Values ◽  
Genetic Association Mapping

scholarly journals Genetic Association Mapping via Evolution-Based Clustering of Haplotypes

PLoS Genetics ◽  
2007 ◽  
Vol 3 (7) ◽  
pp. e111 ◽  
Author(s):  
Ioanna Tachmazidou ◽  
Claudio J Verzilli ◽  
Maria De Iorio
Keyword(s):  
Association Mapping ◽  
Genetic Association ◽  
Genetic Association Mapping

scholarly journals Linkage disequilibrium, genetic association mapping and gene localization in crop plants

2008 ◽  
Vol 31 (4) ◽  
pp. 805-814 ◽  
Author(s):  
Karim Sorkheh ◽  
Lyudmyla V. Malysheva-Otto ◽  
Michelle G. Wirthensohn ◽  
Saeed Tarkesh-Esfahani ◽  
Pedro Martínez-Gómez
Keyword(s):  
Linkage Disequilibrium ◽  
Association Mapping ◽  
Genetic Association ◽  
Crop Plants ◽  
Gene Localization ◽  
Genetic Association Mapping

Current Study Designs, Methods, and Future Directions of Genetic Association Mapping

2015 ◽  
pp. 323-358
Author(s):  
Jami Jackson ◽  
Alison Motsinger-Reif
Keyword(s):  
Association Mapping ◽  
Rare Variants ◽  
Disease Risk ◽  
Future Directions ◽  
Methods Development ◽  
Emerging Trends ◽  
Genome Wide ◽  
Study Designs ◽  
Genetic Association Mapping ◽  
Generation Sequencing

Rapid progress in genotyping technologies, including the scaling up of assay technologies to genome-wide levels and next generation sequencing, has motivated a burst in methods development and application to detect genotype-phenotype associations in a wide array of diseases and other phenotypes. In this chapter, the authors review the study design and genotyping options that are used in association mapping, along with the appropriate methods to perform mapping within these study designs. The authors discuss both candidate gene and genome-wide studies, focused on DNA level variation. Quality control, genotyping technologies, and single-SNP and multiple-SNP analyses have facilitated the successes in identifying numerous loci influence disease risk. However, variants identified have generally explained only a small fraction of the heritable component of disease risk. The authors discuss emerging trends and future directions in performing analysis for rare variants to detect these variants that predict these traits with more complex etiologies.

A novel genetic framework for studying response to artificial selection

2011 ◽  
Vol 9 (2) ◽  
pp. 281-283 ◽  
Author(s):  
Randall J. Wisser ◽  
Peter J. Balint-Kurti ◽  
James B. Holland
Keyword(s):  
Association Mapping ◽  
Artificial Selection ◽  
Allelic Frequency ◽  
Frequency Change ◽  
Response To Selection ◽  
Crop Species ◽  
Simultaneous Application ◽  
Significant Enrichment ◽  
Genetic Association Mapping

Response to selection is fundamental to plant breeding. To gain insight into the genetic basis of response to selection, we propose a new experimental genetic framework allowing for the identification of trait-specific genomic loci underlying population improvement and the characterization of allelic frequency responses at those loci. This is achieved by employing a sampling scheme for recurrently selected populations that allows for the simultaneous application of genetic association mapping and analysis of allelic frequency change across generations of selection. The combined method unites advantages of the two approaches, permitting the estimation of trait-specific allelic effects by association mapping and the detection of rare favourable alleles by their significant enrichment over generations of selection. Our aim is to develop a framework applicable for many crop species in order to gain a broader and deeper understanding of the genetic architecture of response to artificial selection.

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