Nonlinear Analysis of Time Series in Genome-Wide Linkage Disequilibrium Data

2008 ◽  
Author(s):  
Enrique Hernández-Lemus ◽  
Jesús K. Estrada-Gil ◽  
Irma Silva-Zolezzi ◽  
J. Carlos Fernández-López ◽  
Alfredo Hidalgo-Miranda ◽  
...  
Keyword(s):  
Time Series ◽  
Linkage Disequilibrium ◽  
Nonlinear Analysis ◽  
Genome Wide ◽  
Genome Wide Linkage Disequilibrium ◽  
Analysis Of Time Series

Genome-wide linkage disequilibrium in two Japanese beef cattle breeds

2006 ◽  
Vol 37 (2) ◽  
pp. 139-144 ◽  
Author(s):  
M. Odani ◽  
A. Narita ◽  
T. Watanabe ◽  
K. Yokouchi ◽  
Y. Sugimoto ◽  
...  
Keyword(s):  
Linkage Disequilibrium ◽  
Beef Cattle ◽  
Cattle Breeds ◽  
Genome Wide ◽  
Beef Cattle Breeds ◽  
Genome Wide Linkage Disequilibrium

scholarly journals Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel

BMC Genomics ◽  
2008 ◽  
Vol 9 (1) ◽  
pp. 187 ◽  
Author(s):  
Mehar S Khatkar ◽  
Frank W Nicholas ◽  
Andrew R Collins ◽  
Kyall R Zenger ◽  
Julie AL Cavanagh ◽  
...  
Keyword(s):  
Linkage Disequilibrium ◽  
High Density ◽  
Genome Wide ◽  
Holstein Friesian ◽  
Snp Panel ◽  
Friesian Cattle ◽  
Genome Wide Linkage Disequilibrium

scholarly journals Genome wide linkage disequilibrium and genetic structure in Sicilian dairy sheep breeds

BMC Genetics ◽  
2014 ◽  
Vol 15 (1) ◽  
Author(s):  
Salvatore Mastrangelo ◽  
◽  
Rosalia Di Gerlando ◽  
Marco Tolone ◽  
Lina Tortorici ◽  
...  
Keyword(s):  
Linkage Disequilibrium ◽  
Genetic Structure ◽  
Dairy Sheep ◽  
Sheep Breeds ◽  
Genome Wide ◽  
Genome Wide Linkage Disequilibrium

scholarly journals Genome-Wide Linkage Disequilibrium and the Extent of Effective Population Sizes in Six Chinese Goat Populations Using a 50K Single Nucleotide Polymorphism Panel

Animals ◽  
2019 ◽  
Vol 9 (6) ◽  
pp. 350 ◽  
Author(s):  
Haile Berihulay ◽  
Rabiul Islam ◽  
Lin Jiang ◽  
Yuehui Ma
Keyword(s):  
Linkage Disequilibrium ◽  
Genetic Parameter ◽  
Genetic Selection ◽  
Chromosome 1 ◽  
Effective Population ◽  
Genome Wide ◽  
Population Sizes ◽  
Trait Locus ◽  
D Values ◽  
Genome Wide Linkage Disequilibrium

Genome-wide linkage disequilibrium is a useful parameter to study quantitative trait locus (QTL) mapping and genetic selection. In many genomic methodologies, effective population size is an important genetic parameter because of its relationship to the loss of genetic variation, increases in inbreeding, the accumulation of mutations, and the effectiveness of selection. In this study, a total of 193 individuals were genotyped to assess the extent of LD and Ne in six Chinese goat populations using the SNP 50K BeadChip. Across the determined autosomal chromosomes, we found an average of 0.02 and 0.23 for r2 and D’ values, respectively. The average r2 between all the populations varied little and ranged from 0.055 r2 for the Jining Grey to 0.128 r2 for the Guangfeng, with an overall mean of 0.083. Across the 29 autosomal chromosomes, minor allele frequency (MAF) was highest on chromosome 1 (0.321) and lowest on chromosome 25 (0.309), with an average MAF of 0.317, and showing the lowest (25.5% for Louping) and highest (28.8% for Qingeda) SNP proportions at MAF values > 0.3. The inbreeding coefficient ranged from 0.064 to 0.085, with a mean of 0.075 for all the autosomes. The Jining Grey and Qingeda populations showed higher Ne estimates, highlighting that these animals could have been influenced by artificial selection. Furthermore, a declining recent Ne was distinguished for the Arbas Cashmere and Guangfeng populations, and their estimated values were closer to 64 and 95, respectively, 13 generations ago, which indicates that these breeds were exposed to strong selection. This study provides an insight into valuable genetic information and will open up the opportunity for further genomic selection analysis of Chinese goat populations.

Genome-wide linkage disequilibrium mapping of late onset Alzheimer's disease in Finland

2000 ◽  
Vol 21 ◽  
pp. 12
Author(s):  
Mikko J. Hiltunen ◽  
Arto Mannermaa ◽  
Mia Pirskanen ◽  
Anne Koivisto ◽  
Seppo Helisalmi ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Linkage Disequilibrium ◽  
Late Onset ◽  
Linkage Disequilibrium Mapping ◽  
Genome Wide ◽  
Genome Wide Linkage Disequilibrium

Genome-wide linkage disequilibrium mapping of late-onset Alzheimer's disease in Finland

Neurology ◽  
2001 ◽  
Vol 57 (9) ◽  
pp. 1663-1668 ◽  
Author(s):  
M. Hiltunen ◽  
A. Mannermaa ◽  
D. Thompson ◽  
D. Easton ◽  
M. Pirskanen ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Linkage Disequilibrium ◽  
Late Onset ◽  
Linkage Disequilibrium Mapping ◽  
Genome Wide ◽  
Genome Wide Linkage Disequilibrium

Analysis of genome-wide linkage disequilibrium in the highly polyploid sugarcane

2008 ◽  
Vol 116 (5) ◽  
pp. 701-714 ◽  
Author(s):  
Louis-Marie Raboin ◽  
Jérôme Pauquet ◽  
Mike Butterfield ◽  
Angélique D’Hont ◽  
Jean-Christophe Glaszmann
Keyword(s):  
Linkage Disequilibrium ◽  
Genome Wide ◽  
Genome Wide Linkage Disequilibrium
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