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Searching for Homologous Genes Using Daisychain

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Plant Comparative Genomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2512))

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Abstract

Genome assemblies have become a standard tool of genomics research and are relatively inexpensive to produce due to falling sequencing costs. For many species, there are now several reference-grade genome assemblies. However, comparing different assemblies or the same or related individuals is not an easy task, especially with different levels of quality of assembly and annotation. Tools are needed to visualise related genes with different IDs across genome assemblies. Here, we present a workflow to search and visualise related genes using Daisychain, a web-based tool aimed at researchers who wish to compare genes between assemblies.

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Author information

Authors and Affiliations

  1. Applied Bioinformatics Group, School of Biological Sciences, The University of Western Australia, Perth, WA, Australia

    Philipp E. Bayer & David Edwards

Authors
  1. Philipp E. Bayer
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  2. David Edwards
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Corresponding author

Correspondence to David Edwards .

Editor information

Editors and Affiliations

  1. Unidad de Biotecnología Industrial, Centro de Investigación y Asistencia en Tecnología y Diseño del Estado de Jalisco, A.C., Zapopan, Jalisco, Mexico

    Alejandro Pereira-Santana

  2. Unidad de Biotecnología, Centro de Investigación CientÚfica de Yucatán, Mérida, Yucatán, Mexico

    Samuel David Gamboa-Tuz

  3. Unidad de Biotecnología., Centro de Investigación Científica de Yucatán, Mérida, Yucatán, Mexico

    Luis Carlos Rodríguez-Zapata

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© 2022 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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Bayer, P.E., Edwards, D. (2022). Searching for Homologous Genes Using Daisychain. In: Pereira-Santana, A., Gamboa-Tuz, S.D., Rodríguez-Zapata, L.C. (eds) Plant Comparative Genomics. Methods in Molecular Biology, vol 2512. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2429-6_7

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  • DOI: https://doi.org/10.1007/978-1-0716-2429-6_7

  • Published:

  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-2428-9

  • Online ISBN: 978-1-0716-2429-6

  • eBook Packages: Springer Protocols

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