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Multiple Sequence Alignment pp 261–295Cite as

NCBI Genome Workbench: Desktop Software for Comparative Genomics, Visualization, and GenBank Data Submission

Part of the Methods in Molecular Biology book series (MIMB,volume 2231)

Abstract

The book chapter introduces the National Center for Biotechnology Information (NCBI) Genome Workbench, a desktop GUI software package to manipulate and visualize complex molecular biology models provided in many data formats. Genome Workbench integrates graphical views and computational tools in a single package to facilitate discoveries. In this chapter we provide a step-by-step protocol guidance on how to do comparative analysis of sequences using NCBI BLAST and multiple sequence alignment algorithms, build phylogenetic trees, and use graphical views for sequences, alignments, and trees to validate the findings. The software package can be used to prepare high-quality whole genome submissions to NCBI. The software package is user-friendly and includes validation and editing tools to fix errors as part of preparing the submission.

Key words

  • Phylogenetic
  • Alignment
  • MUSCLE
  • MAFFT
  • Clustal
  • Analysis
  • GenBank
  • Genome
  • PubMed
  • BLAST
  • Visualization
  • Bioinformatics

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  • DOI: 10.1007/978-1-0716-1036-7_16
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Acknowledgments

This research was supported by the Intramural Research Program of the National Library of Medicine, National Institutes of Health.

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Authors and Affiliations

  1. National Center for Biotechnology Information, U.S. National Library of Medicine, North Potomac, MD, USA

    Anatoliy Kuznetsov & Colleen J. Bollin

Authors
  1. Anatoliy Kuznetsov
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  2. Colleen J. Bollin
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Correspondence to Anatoliy Kuznetsov .

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Editors and Affiliations

  1. Research Institute for Microbial Disease, Osaka University, Osaka, Japan

    Kazutaka Katoh

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Kuznetsov, A., Bollin, C.J. (2021). NCBI Genome Workbench: Desktop Software for Comparative Genomics, Visualization, and GenBank Data Submission. In: Katoh, K. (eds) Multiple Sequence Alignment. Methods in Molecular Biology, vol 2231. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1036-7_16

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  • DOI: https://doi.org/10.1007/978-1-0716-1036-7_16

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-1035-0

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