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Expressed Sequence Tags

Analysis and Annotation

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Parasite Genomics Protocols

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 270))

Abstract

Expressed sequence tags (ESTs) present a special set of problems for bioinformatic analysis. They are partial and error-prone, and large datasets can have significant internal redundancy. To facilitate analysis of small EST datasets from in-house projects, we present an integrated “pipeline” of tools that take EST data from sequence trace to database submission. These tools also can be used to provide clustering of ESTs into putative genes and to annotate these genes with preliminary sequence similarity searches. The systems are written to use the public-domain LINUX environment and other openly available analytical tools.

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Author information

Authors and Affiliations

  1. Institute of Cell, Animal, and Population Biology, Ashworth Laboratories, University of Edinburgh, Edinburgh, UK

    John Parkinson & Mark Blaxter

Authors
  1. John Parkinson
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  2. Mark Blaxter
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Editor information

Editors and Affiliations

  1. Department of Pathology, University of Cambridge, Cambridge, UK

    Sara E. Melville

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© 2004 Humana Press Inc., Totowa,NJ

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Parkinson, J., Blaxter, M. (2004). Expressed Sequence Tags. In: Melville, S.E. (eds) Parasite Genomics Protocols. Methods in Molecular Biology™, vol 270. Humana Press. https://doi.org/10.1385/1-59259-793-9:093

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  • DOI: https://doi.org/10.1385/1-59259-793-9:093

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-062-5

  • Online ISBN: 978-1-59259-793-2

  • eBook Packages: Springer Protocols

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