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Eukaryotic Genomic Databases pp 211–249Cite as

Bovine Genome Database: Tools for Mining the Bos taurus Genome

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1757))

Abstract

The Bovine Genome Database (BGD; http://bovinegenome.org) is a web-accessible resource that supports bovine genomics research by providing genome annotation and data mining tools. BovineMine is a tool within BGD that integrates BGD data, including the genome, genes, precomputed gene expression levels and variant consequences, with external data sources that include quantitative trait loci (QTL), orthologues, Gene Ontology, gene interactions, and pathways. BovineMine enables researchers without programming skills to create custom integrated datasets for use in downstream analyses. This chapter describes how to enhance a bovine genomics project using the Bovine Genome Database, with data mining examples demonstrating BovineMine.

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Acknowledgments

The authors would like to thank Colin M. Diesh for his contributions to the development of BovineMine, BGD BLAST, and BGD JBrowse/Apollo. This work was supported by funding from the European Union’s Seventh Framework Programme for research, technological development, and demonstration under grant agreement no. 613689.

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Authors and Affiliations

  1. Division of Animal Sciences, University of Missouri, Columbia, MO, USA

    Darren E. Hagen, Deepak R. Unni, Aditi Tayal, Gregory W. Burns & Christine G. Elsik

  2. Division of Plant Sciences, University of Missouri, Columbia, MO, USA

    Christine G. Elsik

  3. MU Informatics Institute, University of Missouri, Columbia, MO, USA

    Christine G. Elsik

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  1. Darren E. Hagen
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  2. Deepak R. Unni
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  3. Aditi Tayal
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  4. Gregory W. Burns
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Correspondence to Christine G. Elsik .

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  1. Group Systems Biology of Motor Proteins, Department of NMR-Based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Göttingen, Germany

    Martin Kollmar

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Hagen, D.E., Unni, D.R., Tayal, A., Burns, G.W., Elsik, C.G. (2018). Bovine Genome Database: Tools for Mining the Bos taurus Genome. In: Kollmar, M. (eds) Eukaryotic Genomic Databases. Methods in Molecular Biology, vol 1757. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7737-6_9

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