ArticleScientific reports2018
Widespread modulation of gene expression by copy number variation in skeletal muscle.
Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Genome-Wide Analysis of Copy Number Variation in Vietnamese Local Chickens.Animals : an open access journal from MDPI · 2026Article
- Identify Candidate Genes Associated with the Weight and Egg Quality Traits in Wenshui Green Shell-Laying Chickens by the Copy Number Variation-Based Genome-Wide Association Study.Veterinary sciences · 2024Article
- Genome-wide association studies for economically important traits in mink using copy number variation.Scientific reports · 2024Article
- ELF4 was a prognostic biomarker and related to immune infiltrates in glioma.Journal of Cancer · 2024Article
- An effect of large-scale deletions and duplications on transcript expression.Functional & integrative genomics · 2022Article
- Olfactory receptor subgenome and expression in a highly olfactory procellariiform seabird.Genetics · 2022Article
- Extensive allele mining discovers novel genetic diversity in the loci controlling frost tolerance in barley.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- The good, the bad, and the ugly: Evolutionary and pathological aspects of gene dosage alterations.PLoS genetics · 2021Review
- Genome-wide detection of CNVs and their association with performance traits in broilers.BMC genomics · 2021Article
- Genome-wide scan for selection signatures reveals novel insights into the adaptive capacity in local North African cattle.Scientific reports · 2020Article
- CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes.Bioinformatics (Oxford, England) · 2020Article
- Identification of Copy Number Variation in Domestic Chicken Using Whole-Genome Sequencing Reveals Evidence of Selection in the Genome.Animals : an open access journal from MDPI · 2019Article
- The Genomic Complexity of a Large Inversion in Great Tits.Genome biology and evolution · 2019Article
- Detection of Co-expressed Pathway Modules Associated With Mineral Concentration and Meat Quality in Nelore Cattle.Frontiers in genetics · 2019Article
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Authors and funding
8 authors.
Funding
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Abstract
Copy number variation (CNV) is a frequently observed deviation from the diploid state due to duplication or deletion of genomic regions. Although intensively analyzed for association with diseases and production traits, the specific mechanisms and extent by which such variations affect the phenotype are incompletely understood. We present an integrative study on CNV and genome-wide gene expression in Brazilian Bos indicus cattle. We analyzed CNVs inferred from SNP-chip data for effects on gene expression measured with RNA-seq in skeletal muscle samples of 183 steers. Local effects, where expression changes coincided with CNVs in the respective genes, were restricted to immune genes. Distal effects were attributable to several high-impact CNVs that modulated remote expression in an orchestrated and intertwined fashion. These CNVs were located in the vicinity of major skeletal muscle pathway regulators and associated genes were enriched for proteolysis, autophagy, and muscle structure development. From association analysis between CNVs and several meat quality and production traits, we found CNV-associated expression effects to also manifest at the phenotype level. Based on genome sequences of the population founders, we further demonstrate that CNVs with impact on expression and phenotype are passed on from one generation to another.
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