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Using the Candida Genome Database

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Eukaryotic Genomic Databases

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

Abstract

Studying Candida biology requires access to genomic sequence data in conjunction with experimental information that together provide functional context to genes and proteins, and aid in interpreting newly generated experimental data. The Candida Genome Database (CGD) curates the Candida literature, and integrates functional information about Candida genes and their products with a set of analysis tools that facilitate searching for sets of genes and exploring their biological roles. This chapter describes how the various types of information available at CGD can be searched, retrieved, and analyzed. Starting with the guided tour of the CGD Home page and Locus Summary page, this unit shows how to navigate the various assemblies of the C. albicans genome, how to use Gene Ontology tools to make sense of large-scale data, and how to access the microarray data archived at CGD, as well as visualize high-throughput sequencing data through the use of JBrowse.

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Acknowledgments

This work was supported by National Institute of Dental and Craniofacial Research at the US National Institutes of Health (grant no. R01 DE015873).

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Authors and Affiliations

  1. Department of Genetics, Stanford University, Stanford, CA, USA

    Marek S. Skrzypek, Jonathan Binkley & Gavin Sherlock

Authors
  1. Marek S. Skrzypek
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  2. Jonathan Binkley
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  3. Gavin Sherlock
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Corresponding author

Correspondence to Gavin Sherlock .

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Editors and Affiliations

  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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Skrzypek, M.S., Binkley, J., Sherlock, G. (2018). Using the Candida Genome Database. 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_3

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  • DOI: https://doi.org/10.1007/978-1-4939-7737-6_3

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7736-9

  • Online ISBN: 978-1-4939-7737-6

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