Ruler arrays reveal haploid genomic structural variation. [PDF]
PLoS ONE, 2012 Despite the known relevance of genomic structural variants to pathogen behavior, cancer, development, and evolution, certain repeat based structural variants may evade detection by existing high-throughput techniques.
P Alexander Rolfe +4 more
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Long-read-based human genomic structural variation detection with cuteSV [PDF]
Genome Biology, 2020 Long-read sequencing is promising for the comprehensive discovery of structural variations (SVs). However, it is still non-trivial to achieve high yields and performance simultaneously due to the complex SV signatures implied by noisy long reads.
Tao Jiang +8 more
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Genomic structural variation in tomato and its role in plant immunity [PDF]
Molecular Horticulture, 2022 It is well known that large genomic variations can greatly impact the phenotype of an organism. Structural Variants (SVs) encompass any genomic variation larger than 30 base pairs, and include changes caused by deletions, inversions, duplications ...
Emma Jobson, Robyn Roberts
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Global assessment of genomic variation in cattle by genome resequencing and high-throughput genotyping [PDF]
BMC Genomics, 2011 Background Integration of genomic variation with phenotypic information is an effective approach for uncovering genotype-phenotype associations. This requires an accurate identification of the different types of variation in individual genomes.
Zhan Bujie +5 more
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SVvalidation: A long-read-based validation method for genomic structural variation. [PDF]
PLoS ONEAlthough various methods have been developed to detect structural variations (SVs) in genomic sequences, few are used to validate these results. Several commonly used SV callers produce many false positive SVs, and existing validation methods are not ...
Yan Zheng, Xuequn Shang
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Adaptive genomic structural variation in the grape powdery mildew pathogen, Erysiphe necator. [PDF]
BMC Genomics, 2014 BackgroundPowdery mildew, caused by the obligate biotrophic fungus Erysiphe necator, is an economically important disease of grapevines worldwide. Large quantities of fungicides are used for its control, accelerating the incidence of fungicide-resistance.
Jones L +7 more
europepmc +4 more sources
The biomedical landscape of genomic structural variation in the qatari population [PDF]
Nature CommunicationsWe present a large-scale study of structural variation (SV) in the Qatari population, based on short-read whole-genome sequencing (WGS) of 6,141 individuals, identifying 153,946 variants across 5 classes reflecting the region’s diversity and evolutionary
Elbay Aliyev +22 more
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Genomic structural variation-mediated allelic suppression causes hybrid male sterility in rice [PDF]
Nature Communications, 2017 A reproductive barrier between japonica and indica rice subspecies hinders hybrid breeding. Here, the authors reveal that structural and copy number variations of a pollen-essential gene, which encodes a DUF1618-domain protein, result in allelic ...
Rongxin Shen +11 more
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Genomic structural variation in an alpha/beta hydrolase triggers hybrid necrosis in wheat [PDF]
Nature CommunicationsHybrid necrosis, a century-old mystery in wheat, is caused by complementary genes Ne1 and Ne2. Ne2, encoding a nucleotide-binding leucine-rich repeat (NLR) immune receptor, has been cloned, yet Ne1 remains elusive. Here, we report that Ne1, which encodes
Yaoqi Si +25 more
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Frontiers in Genetics, 2022 The field of population genomics has seen a surge of studies on genomic structural variation over the past two decades. These studies witnessed that structural variation is taxonomically ubiquitous and represent a dominant form of genetic variation ...
Ivan Pokrovac, Željka Pezer
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