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MCKAT: a multi-dimensional copy number variant kernel association test
BackgroundCopy number variants (CNVs) are the gain or loss of DNA segments in the genome. Studies have shown that CNVs are linked to various...
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Determination of Growth Rate and Virulence Plasmid Copy Number During Yersinia pseudotuberculosis Infection Using Droplet Digital PCR
Pathogenic bacteria have evolved the ability to evade their host defenses and cause diseases. Virulence factors encompass a wide range of adaptations...
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Copy Number Analysis of the Yeast Histone Deacetylase Complex Component Cti6 Directly in Living Cells
Proteins are one of the key components of cellular life that play a crucial role in most biological processes. Therefore, quantification of protein...
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Efficient assembly of a synthetic attenuated SARS-CoV-2 genome in Saccharomyces cerevisiae using multi-copy yeast vectors
Saccharomyces cerevisiae has been demonstrated to be an excellent platform for the multi-fragment assembly of large DNA constructs through its...
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Syndecan-4 affects myogenesis via Rac1-mediated actin remodeling and exhibits copy-number amplification and increased expression in human rhabdomyosarcoma tumors
Skeletal muscle demonstrates a high degree of regenerative capacity repeating the embryonic myogenic program under strict control. Rhabdomyosarcoma...
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A composite strategy of genome-wide association study and copy number variation analysis for carcass traits in a Duroc pig population
BackgroundCarcass traits are important in pig breeding programs for improving pork production. Understanding the genetic variants underlies complex...
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Integrative single-cell analysis of allele-specific copy number alterations and chromatin accessibility in cancer
Cancer progression is driven by both somatic copy number aberrations (CNAs) and chromatin remodeling, yet little is known about the interplay between...
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Probing low-copy-number proteins in single living cells using single-cell plasmonic immunosandwich assays
Cellular heterogeneity is pervasive and of paramount importance in biology. Single-cell analysis techniques are indispensable for understanding the...
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COX6C expression driven by copy amplification of 8q22.2 regulates cell proliferation via mediation of mitosis by ROS-AMPK signaling in lung adenocarcinoma
Copy number variations (CNVs) play a vital role in regulating genes expression and tumorigenesis. We explored the copy number alterations in...
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Duplication Versus Deletion Through the Lens of 15q13.3: Clinical and Research Implications of Studying Copy Number Variants Associated with Neuropsychiatric Disorders in Induced Pluripotent Stem Cell-Derived Neurons
Copy number variants (CNVs), involving duplication or deletion of susceptible intervals of the human genome, underlie a range of neurodevelopmental...
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Comprehensive characterization and clinical relevance of the SWI/SNF copy number aberrations across human cancers
BackgroundAlterations in genes encoding chromatin regulatory proteins are prevalent in cancers and may confer oncogenic properties and molecular...
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GSA: an independent development algorithm for calling copy number and detecting homologous recombination deficiency (HRD) from target capture sequencing
BackgroundThe gain or loss of large chromosomal regions or even whole chromosomes is termed as genomic scarring and can be observed as copy number...
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16S rRNA Gene Copy Number Normalization Does Not Provide More Reliable Conclusions in Metataxonomic Surveys
Sequencing 16S rRNA gene amplicons is the gold standard to uncover the composition of prokaryotic communities. The presence of multiple copies of...
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isoCNV: in silico optimization of copy number variant detection from targeted or exome sequencing data
BackgroundAccurate copy number variant (CNV) detection is especially challenging for both targeted sequencing (TS) and whole‐exome sequencing (WES)...
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Detection of copy number variants in African goats using whole genome sequence data
BackgroundCopy number variations (CNV) are a significant source of variation in the genome and are therefore essential to the understanding of...
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Regulation of gene editing using T-DNA concatenation
Transformation via Agrobacterium tumefaciens is the predominant method used to introduce exogenous DNA into plant genomes
1 ,2 . Transfer DNA (T-DNA)...
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Mutation Detection in Gamma-Irradiated Banana Using Low Coverage Copy Number Variation
Mutagenesis of in vitro propagated bananas is an efficient method to introduce novel alleles and broaden genetic diversity. The FAO/IAEA Plant...
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Digital PCR (dPCR) and qPCR mediated determination of transgene copy number in the forage legume white clover (Trifolium repens)
Obtaining data on transgene copy number is an integral step in the generation of transgenic plants. Techniques such as Southern blot, segregation...
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Improving high-resolution copy number variation analysis from next generation sequencing using unique molecular identifiers
BackgroundRecently, copy number variations (CNV) impacting genes involved in oncogenic pathways have attracted an increasing attention to manage...
