[PDF] Top 20 Whole genome diversity, population structure and linkage disequilibrium analysis
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Whole genome diversity, population structure and linkage disequilibrium analysis
... The 186 chickpea genotypes analyzed by DArTseq-SNPs. The initial data set consisted of 3339 SNPs and after filtering data for some quality parameters including minor allele frequency lower than 0.1, missing data ≥10% and ... See full document
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Origin, Diversity and Genome Sequence of Mango (Mangifera indica L )
... program, STRUCTURE version ...determining population structure, populations K = 1 to K = 10 were ...of structure tool were subsequently collated using the Structure harvester tool Web ... See full document
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Characterization of Genetic Diversity and Linkage Disequilibrium of ZmNAC33 in Maize
... genetic diversity of ZmNAC33 among 69 elite maize inbred lines, a total of 144 sequence variants, including 113 SNPs and 31 ...test. Analysis of polymorphism sites showed that at least 28 recombination have ... See full document
10
Genetic variation, population structure and linkage disequilibrium in Switchgrass with ISSR, SCoT and EST-SSR markers
... genetic diversity, genome mapping and evolutionary biology ...genetic diversity and cultivar relationship analysis ...the genome from EST databases, thus explaining the low cost of ... See full document
12
Genome-Wide Linkage-Disequilibrium Profiles from Single Individuals
... the analysis of linkage disequilibrium (LD) plays a central role in many areas of population genetics, the sampling variance of LD is known to be very large with high sensitivity to numbers of ... See full document
18
A Scan for Linkage Disequilibrium Across the Human Genome
... INKAGE disequilibrium (LD) occurs in populations Different evolutionary origins of LD may produce dif- as a consequence of mutation, random genetic ferent genomic patterns among selectively neutral ...and ... See full document
12
Genetic diversity and population structure of Plasmodium falciparum in Thailand, a low transmission country
... genetic structure of ...highest population genetic diversity. The genetic diversity decreased with low transmission intensities, as in Thailand (Asia) and French Guyana (South ...genetic ... See full document
11
Nucleotide Polymorphism and Linkage Disequilibrium in Wild Populations of the Partial Selfer Caenorhabditis elegans
... organism’s genome requires an accurate description of the patterns of genetic variation within and between natural ...silent-site diversity are low within and between populations of this self-fertile ... See full document
14
Population Structure and Its Effect on Haplotype Diversity and Linkage Disequilibrium Surrounding the xa5 Locus of Rice (Oryza sativa L.)
... DNA sequencing: A total of 10 l of quantified PCR product taining xa5 in resistant accessions and to determine if was treated with 10 units exonuclease I and 2 units shrimp it is possible to reduce the number of ... See full document
12
RAD sequencing and a hybrid Antarctic fur seal genome assembly reveal rapidly decaying linkage disequilibrium, global population structure and evidence for inbreeding
... Georgia population, to characterise the pattern of LD decay as well as the variance in ...of population structure across the species range and compared the ability of the two marker types to resolve ... See full document
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Inferring Coancestry in Population Samples in the Presence of Linkage Disequilibrium
... Table 3 presents the key results on the impact of LD on ibd inference, with the results tabulated as percentages over the 6913 markers over all the 500 pairs of individuals. Since our analysis model does not ... See full document
17
Genome-Wide Estimation of Linkage Disequilibrium from Population-Level High-Throughput Sequencing Data
... Our goal is to estimate the allele frequencies at each site, the LD coefficient D between the pair of polymorphic sites, and the error rate per site, by maximizing the likelihood of the observed set of sequence reads in a ... See full document
21
Joint Linkage and Linkage Disequilibrium Mapping of Quantitative Trait Loci in Natural Populations
... natural population on the basis of a joint linkage and linkage disequilibrium mapping strategy proposed by Wu and Zeng ...natural population and marker-QTL linkage on the basis ... See full document
14
Distribution of genome-wide linkage disequilibrium based on microsatellite loci in the Samoan population
... Samoan population; and from five to 18, with a median of 11, in the NASC ...Our population substructure ana- lyses strongly support the hypothesis that the Samoans rep- resent one genetic population, ... See full document
8
Analysis of Multilocus Linkage Disequilibrium Structure in the Human Genome
... Although the idea of tagSNPs makes it possible to survey substantial fractions of human variation in a cost-effective manner by using a carefully selected subset of all SNPs, there must inevitably be a reduction in the ... See full document
155
A Simple Scalable Association Hypothesis Test Combining Gene-wide Evidence from Multiple Polymorphisms
... regarding whole genes or functional gene-domains, hypothesis tests are currently reported for individual polymorphisms ...different population with a different structure of linkage ... See full document
10
Within-Host Whole-Genome Deep Sequencing and Diversity Analysis of Human Respiratory Syncytial Virus Infection Reveals Dynamics of Genomic Diversity in the Absence and Presence of Immune Pressure
... RSV sample preparation. Twenty-six serial nasal aspirates were obtained quantitatively and prospectively from the patient as previously described and maintained at ⫺ 80°C (19). The study was conducted with the ap- proval ... See full document
8
Association mapping to dissect and exploit existing natural variation for crop improvement
... system, population size, population structure and selective ...stunning diversity of phenotypic variation for yield and yield related ... See full document
5
Species diversity, community characteristic and population structure in disturbed and undisturbed forest of sepahijala wildlife sanctuary, Tripura
... The forest type of Sepahijala wildlife sanctuary is tropical moist forests found at lower altitudes, represent the climax plant communities in the state. Shifting agriculture, logging, grazing and other human activities ... See full document
8
Improved confidence intervals for the linkage disequilibrium method for estimating effective population size
... Improved confidence intervals for the linkage disequilibrium method for estimating effective population size.. Heredity, 117 (4), ppc[r] ... See full document
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