A robust method to estimate regional polygenic correlation under misspecified linkage disequilibrium structure
Sign Up to like & getrecommendations! Published in 2018 at "Genetic Epidemiology"
DOI: 10.1002/gepi.22149
Abstract: Complex traits can share a substantial proportion of their polygenic heritability. However, genome‐wide polygenic correlations between pairs of traits can mask heterogeneity in their shared polygenic effects across loci. We propose a novel method (weighted… read more here.
Keywords: polygenic correlation; regional polygenic; method; correlation ... See more keywords
PCSK9 post-transcriptional regulation: Role of a 3'UTR microRNA-binding site variant in linkage disequilibrium with c.1420G.
Sign Up to like & getrecommendations! Published in 2020 at "Atherosclerosis"
DOI: 10.1016/j.atherosclerosis.2020.10.010
Abstract: BACKGROUND AND AIMS Proprotein convertase subtilisin/kexin type 9 (PCSK9) plays a crucial role in cholesterol homeostasis. A common variant, the G allele in position c.1420 (c.1420G), has been associated with a decrease of both plasma… read more here.
Keywords: transcriptional regulation; hsa mir; post transcriptional; pcsk9 ... See more keywords
Multi-resolution localization of causal variants across the genome
Sign Up to like & getrecommendations! Published in 2020 at "Nature Communications"
DOI: 10.1038/s41467-020-14791-2
Abstract: In the statistical analysis of genome-wide association data, it is challenging to precisely localize the variants that affect complex traits, due to linkage disequilibrium, and to maximize power while limiting spurious findings. Here we report… read more here.
Keywords: causal variants; method; multi resolution; genome ... See more keywords
Genome-Wide Linkage-Disequilibrium Mapping to the Candidate Gene Level in Melon (Cucumis melo)
Sign Up to like & getrecommendations! Published in 2017 at "Scientific Reports"
DOI: 10.1038/s41598-017-09987-4
Abstract: Cucumis melo is highly diverse for fruit traits providing wide breeding and genetic research opportunities, including genome-wide association (GWA) analysis. We used a collection of 177 accessions representing the two C. melo subspecies and 11… read more here.
Keywords: genome wide; gene level; melon; cucumis melo ... See more keywords
Bayesian model combining linkage and linkage disequilibrium analysis for low density-based genomic selection in animal breeding
Sign Up to like & getrecommendations! Published in 2018 at "Journal of Applied Animal Research"
DOI: 10.1080/09712119.2017.1415903
Abstract: ABSTRACT We combined linkage (LA) and linkage disequilibrium (LDA) analyses (emerging the term ‘LALDA’) for genomic selection (GS) purposes. The models were fitted to a simulated dataset and to a real data of feed conversion… read more here.
Keywords: genomic selection; linkage disequilibrium; linkage linkage;
LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on variant call format files
Sign Up to like & getrecommendations! Published in 2021 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbaa227
Abstract: The triangular correlation heatmap aiming to visualize the linkage disequilibrium (LD) pattern and haplotype block structure of SNPs is ubiquitous component of population-based genetic studies. However, current tools suffered from the problem of time and… read more here.
Keywords: variant call; format files; haplotype blocks; haplotype ... See more keywords
The Linkage-Disequilibrium and Recombinational Landscape in Daphnia pulex
Sign Up to like & getrecommendations! Published in 2022 at "Genome Biology and Evolution"
DOI: 10.1093/gbe/evac145
Abstract: Abstract By revealing the influence of recombinational activity beyond what can be achieved with controlled crosses, measures of linkage disequilibrium (LD) in natural populations provide a powerful means of defining the recombinational landscape within which… read more here.
Keywords: recombination; linkage disequilibrium; daphnia pulex; recombinational landscape ... See more keywords
Heteroplasmy and Patterns of Cytonuclear Linkage Disequilibrium in Wild Carrot.
Sign Up to like & getrecommendations! Published in 2019 at "Integrative and comparative biology"
DOI: 10.1093/icb/icz102
Abstract: Organellar genomes are considered to be strictly uniparentally-inherited. Uniparental inheritance allows for cytonuclear coevolution and the development of highly coordinated cytonuclear interactions. Yet, instances of biparental inheritance have been documented across eukaryotes. Biparental inheritance in… read more here.
Keywords: cytonuclear linkage; heteroplasmy; wild carrot; organellar genomes ... See more keywords
Linkage disequilibrium suggests genomic stability in omicron clades of SARS-CoV-2 from the ASEAN countries.
Sign Up to like & getrecommendations! Published in 2023 at "Journal of travel medicine"
DOI: 10.1093/jtm/taad020
Abstract: Genome-wide population structure analyses showed the presence of linkage disequilibrium and low recombination rates in the SARS-CoV-2. read more here.
Keywords: linkage disequilibrium; suggests genomic; sars cov; genomic stability ... See more keywords
Recent demographic history inferred by high-resolution analysis of linkage disequilibrium.
Sign Up to like & getrecommendations! Published in 2020 at "Molecular biology and evolution"
DOI: 10.1093/molbev/msaa169
Abstract: Inferring changes in effective population size (Ne) in the recent past is of special interest for conservation of endangered species and for human history research. Current methods for estimating the very recent historical Ne are… read more here.
Keywords: demographic history; history; analysis; linkage disequilibrium ... See more keywords
Effects of Demographic History on the Detection of Recombination Hotspots from Linkage Disequilibrium
Sign Up to like & getrecommendations! Published in 2018 at "Molecular Biology and Evolution"
DOI: 10.1093/molbev/msx272
Abstract: &NA; In some species, meiotic recombination is concentrated in small genomic regions. These “recombination hotspots” leave signatures in fine‐scale patterns of linkage disequilibrium, raising the prospect that the genomic landscape of hotspots can be characterized… read more here.
Keywords: demographic history; population; recombination; recombination hotspots ... See more keywords