ArticleNucleic acids research2020
Bovine Genome Database: new annotation tools for a new reference genome.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
27 citing papers in PubMed.
- LivestockDev: A multi-omics resource for exploring cross-species comparison of livestock embryogenesis.Zoological research · 2026Article
- RNA-Seq Analysis of Ruminal Methane Emissions in Beef-on-Dairy Cattle: Evidence for Immune, Nervous, and Endocrine Pathway Involvement.Animals : an open access journal from MDPI · 2026Article
- Bovine Genome Database: new curated collection of selective sweeps in bovine populations across the world.Nucleic acids research · 2026Article
- Article
- Spontaneous immortalization of bovine fibroblasts following long-term expansion offers a non-transformed cell source for cultivated beef.Nature food · 2025Article
- GBRAP: A Comprehensive Database and Tool for Exploring Genomic Diversity Across All Domains of Life.Molecular biology and evolution · 2025Article
- Integrating multi-layered biological priors to improve genomic prediction accuracy in beef cattle.Biology direct · 2024Article
- Article
- Review
- Distinct microbial hydrogen and reductant disposal pathways explain interbreed variations in ruminant methane yield.The ISME journal · 2024Article
- Vet informatics and the future of drug discovery in veterinary medicine.Frontiers in veterinary science · 2024Article
- AgAnimalGenomes: browsers for viewing and manually annotating farm animal genomes.Mammalian genome : official journal of the International Mammalian Genome Society · 2023Article
- Article
- Editorial: Vetinformatics: an insight for decoding livestock systems throughFrontiers in veterinary science · 2023Article
- Distinct effector functions mediated by Fc regions of bovine IgG subclasses and their interaction with Fc gamma receptors.Frontiers in immunology · 2023Article
- Transcriptional atlas analysis from multiple tissues reveals the expression specificity patterns in beef cattle.BMC biology · 2022Article
- Genomic adaptation of Ethiopian indigenous cattle to high altitude.Frontiers in genetics · 2022Article
- Vetinformatics from functional genomics to drug discovery: Insights into decoding complex molecular mechanisms of livestock systems in veterinary science.Frontiers in veterinary science · 2022Review
- Gene co-expression and alternative splicing analysis of key metabolic tissues to unravel the regulatory signatures of fatty acid composition in cattle.RNA biology · 2021Article
- Regulation of gene expression in the bovine blastocyst by colony-stimulating factor 2 is disrupted by CRISPR/Cas9-mediated deletion of CSF2RA.Biology of reproduction · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The Bovine Genome Database (BGD) (http://bovinegenome.org) has been the key community bovine genomics database for more than a decade. To accommodate the increasing amount and complexity of bovine genomics data, BGD continues to advance its practices in data acquisition, curation, integration and efficient data retrieval. BGD provides tools for genome browsing (JBrowse), genome annotation (Apollo), data mining (BovineMine) and sequence database searching (BLAST). To augment the BGD genome annotation capabilities, we have developed a new Apollo plug-in, called the Locus-Specific Alternate Assembly (LSAA) tool, which enables users to identify and report potential genome assembly errors and structural variants. BGD now hosts both the newest bovine reference genome assembly, ARS-UCD1.2, as well as the previous reference genome, UMD3.1.1, with cross-genome navigation and queries supported in JBrowse and BovineMine, respectively. Other notable enhancements to BovineMine include the incorporation of genomes and gene annotation datasets for non-bovine ruminant species (goat and sheep), support for multiple assemblies per organism in the Regions Search tool, integration of additional ontologies and development of many new template queries. To better serve the research community, we continue to focus on improving existing tools, developing new tools, adding new datasets and encouraging researchers to use these resources.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.