ArticleGenomics, proteomics & bioinformatics2020
BGVD: An Integrated Database for Bovine Sequencing Variations and Selective Signatures.
Article in Genomics, proteomics & bioinformatics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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40 citing papers in PubMed.
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- The chromosome-level genome of Chinese indicine cattle breed provides insights into bovine adaptation and immunity.DNA research : an international journal for rapid publication of reports on genes and genomes · 2026Article
- Single nucleotide polymorphism information estimates breed and variety composition ratio in food.Current research in food science · 2026Article
- Global Pangenome Analysis Highlights the Critical Role of Structural Variants in Cattle Improvement and Identifies a Unique Event as a Novel Enhancer in IGFBP7+ Cells.Molecular biology and evolution · 2025Article
- A comparative review of short genetic variant databases across humans and animal species.Briefings in bioinformatics · 2025Review
- Admixture and selection offer insights for the conservation and breeding of Guyuan cattle.BMC biology · 2025Article
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- Transcriptomic profiling of gastrointestinal tracts in dairy cattle during lactation reveals molecular adaptations for milk synthesis.Journal of advanced research · 2025Article
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- Development and validation of a 5K low-density SNP chip for Hainan cattle.BMC genomics · 2024Article
- An overview of recent technological developments in bovine genomics.Veterinary and animal science · 2024Review
- Review
- Population Structure and Selection Signal Analysis of Nanyang Cattle Based on Whole-Genome Sequencing Data.Genes · 2024Review
- Exploration of the Polymorphism Distribution of BovineAnimals : an open access journal from MDPI · 2024Article
- Whole-genome resequencing provides insights into the diversity and adaptation to desert environment in Xinjiang Mongolian cattle.BMC genomics · 2024Article
- AGIDB: a versatile database for genotype imputation and variant decoding across species.Nucleic acids research · 2024Article
- Exploiting public databases of genomic variation to quantify evolutionary constraint on the branch point sequence in 30 plant and animal species.Nucleic acids research · 2023Article
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10 authors.
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Abstract
Next-generation sequencing has yielded a vast amount of cattle genomic data for global characterization of population genetic diversity and identification of genomic regions under natural and artificial selection. However, efficient storage, querying, and visualization of such large datasets remain challenging. Here, we developed a comprehensive database, the Bovine Genome Variation Database (BGVD). It provides six main functionalities: gene search, variation search, genomic signature search, Genome Browser, alignment search tools, and the genome coordinate conversion tool. BGVD contains information on genomic variations comprising ~60.44 M SNPs, ~6.86 M indels, 76,634 CNV regions, and signatures of selective sweeps in 432 samples from modern cattle worldwide. Users can quickly retrieve distribution patterns of these variations for 54 cattle breeds through an interactive source of breed origin map, using a given gene symbol or genomic region for any of the three versions of the bovine reference genomes (ARS-UCD1.2, UMD3.1.1, and Btau 5.0.1). Signals of selection sweep are displayed as Manhattan plots and Genome Browser tracks. To further investigate and visualize the relationships between variants and signatures of selection, the Genome Browser integrates all variations, selection data, and resources, from NCBI, the UCSC Genome Browser, and Animal QTLdb. Collectively, all these features make the BGVD a useful archive for in-depth data mining and analyses of cattle biology and cattle breeding on a global scale. BGVD is publicly available at http://animal.nwsuaf.edu.cn/BosVar.
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