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Open AccessIdentification and characterization of structural variants related to meat quality in pigs using chromosome-level genome assemblies
Many studies have been performed to identify various genomic loci and genes associated with the meat quality in pigs. However, the full genetic architecture of the trait still remains unclear in part because o...
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Article
Open AccessA chromosome-level genome assembly of the Korean crossbred pig Nanchukmacdon (Sus scrofa)
As plentiful high-quality genome assemblies have been accumulated, reference-guided genome assembly can be a good approach to reconstruct a high-quality assembly. Here, we present a chromosome-level genome ass...
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Article
Open AccessmsPIPE: a pipeline for the analysis and visualization of whole-genome bisulfite sequencing data
DNA methylation is an important epigenetic modification that is known to regulate gene expression. Whole-genome bisulfite sequencing (WGBS) is a powerful method for studying cytosine methylation in a whole gen...
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Open AccessComparative methylation and RNA-seq expression analysis in CpG context to identify genes involved in Backfat vs. Liver diversification in Nanchukmacdon Pig
DNA methylation and demethylation at CpG islands is one of the main regulatory factors that allow cells to respond to different stimuli. These regulatory mechanisms help in develo** tissue without affecting ...
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Open AccessIntegration of multi-omics approaches for functional characterization of muscle related selective sweep genes in Nanchukmacdon
Pig as a food source serves daily dietary demand to a wide population around the world. Preference of meat depends on various factors with muscle play the central role. In this regards, selective breeding able...
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Article
Open AccessPopulation analysis of the Korean native duck using whole-genome sequencing data
Advances in next-generation sequencing technologies have provided an opportunity to perform population-level comparative genomic analysis to discover unique genomic characteristics of domesticated animals. Duc...
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Open AccessTAMA: improved metagenomic sequence classification through meta-analysis
Microorganisms are important occupants of many different environments. Identifying the composition of microbes and estimating their abundance promote understanding of interactions of microbes in environmental ...
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Open AccessGMASS: a novel measure for genome assembly structural similarity
Thanks to the recent advancements in next-generation sequencing (NGS) technologies, large amount of genomic data, which are short DNA sequences known as reads, has been accumulating. Diverse assemblers have be...
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Article
Open AccessReconstruction of avian ancestral karyotypes reveals differences in the evolutionary history of macro- and microchromosomes
Reconstruction of ancestral karyotypes is critical for our understanding of genome evolution, allowing for the identification of the gross changes that shaped extant genomes. The identification of such changes...
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Open AccessmySyntenyPortal: an application package to construct websites for synteny block analysis
Advances in sequencing technologies have facilitated large-scale comparative genomics based on whole genome sequencing. Constructing and investigating conserved genomic regions among multiple species (called s...
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Article
Open AccessFunctional and evolutionary analysis of Korean bob-tailed native dog using whole-genome sequencing data
Rapid and cost effective production of large-scale genome data through next-generation sequencing has enabled population-level studies of various organisms to identify their genotypic differences and phenotypi...
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Article
Open AccessDiversity, distribution, and significance of transposable elements in the genome of the only selfing hermaphroditic vertebrate Kryptolebias marmoratus
The Kryptolebias marmoratus is unique because it is the only self-fertilizing hermaphroditic vertebrate, known to date. It primarily reproduces by internal self-fertilization in a mixed ovary/testis gonad. Here, ...
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Open AccessIdentification of disease comorbidity through hidden molecular mechanisms
Despite multiple diseases co-occur, their underlying common molecular mechanisms remain elusive. Identification of comorbid diseases by considering the interactions between molecular components is a key to und...
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Correction: Corrigendum: Genome-wide adaptive complexes to underground stresses in blind mole rats Spalax
Nature Communications 5: Article number: 3966 (2014); Published online: 3 June 2014; Updated: 12 Aug 2015. In Fig. 2 of this Article, the CLOCK protein sequence of the blind mole rat (Spalax) was inadvertently...
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Article
The North Korean Factor in East Asian Regional Security
This paper first examines briefly the current security environment in East Asia and then identifies the North Korean factor in regional security. It later reviews the implications of this factor in a broader c...
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Article
Open AccessDraft genome sequence of the Tibetan antelope
The Tibetan antelope (Pantholops hodgsonii) is endemic to the extremely inhospitable high-altitude environment of the Qinghai-Tibetan Plateau, a region that has a low partial pressure of oxygen and high ultraviol...
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Open AccessAnalyses of pig genomes provide insight into porcine demography and evolution
For 10,000 years pigs and humans have shared a close and complex relationship. From domestication to modern breeding practices, humans have shaped the genomes of domestic pigs. Here we present the assembly and...
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Article
Open AccessThe yak genome and adaptation to life at high altitude
Jianquan Liu and colleagues report the draft genome sequence of the domestic yak, Bos grunniens. Their comparative analyses with low-altitude cattle provide insights into high-altitude adaptation in the yak.
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Open AccessTowards realistic benchmarks for multiple alignments of non-coding sequences
With the continued development of new computational tools for multiple sequence alignment, it is necessary today to develop benchmarks that aid the selection of the most effective tools. Simulation-based bench...
