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Journal of Integrative Bioinformatics

Editor-in-Chief: Schreiber, Falk / Hofestädt, Ralf

Managing Editor: Sommer, Björn

Ed. by Baumbach, Jan / Chen, Ming / Orlov, Yuriy / Allmer, Jens

Editorial Board: Giorgetti, Alejandro / Harrison, Andrew / Kochetov, Aleksey / Krüger, Jens / Ma, Qi / Matsuno, Hiroshi / Mitra, Chanchal K. / Pauling, Josch K. / Rawlings, Chris / Fdez-Riverola, Florentino / Romano, Paolo / Röttger, Richard / Shoshi, Alban / Soares, Siomar de Castro / Taubert, Jan / Tauch, Andreas / Yousef, Malik / Weise, Stephan / Hassani-Pak, Keywan


CiteScore 2017: 0.77

SCImago Journal Rank (SJR) 2017: 0.336

Open Access
Online
ISSN
1613-4516
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Volume 4, Issue 3

Issues

A Methodology for Comparative Functional Genomics

Intikhab Alam
  • School of Computer Science, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
  • Other articles by this author:
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/ Mike Cornell
  • School of Computer Science, United Kingdom of Great Britain and Northern Ireland
  • Faculty of Life Sciences, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
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/ Darren M. Soanes
  • Department of Biosciences, University of Exeter, Geoffrey Pope Building, Stocker Road Exeter, EX4 4QD, United Kingdom of Great Britain and Northern Ireland
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/ Cornelia Hedeler
  • Corresponding author
  • School of Computer Science, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
  • Email
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/ Han Min Wong
  • Department of Biosciences, University of Exeter, Geoffrey Pope Building, Stocker Road Exeter, EX4 4QD, United Kingdom of Great Britain and Northern Ireland
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/ Magnus Rattray
  • School of Computer Science, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
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/ Simon J. Hubbard
  • Faculty of Life Sciences, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
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/ Nicholas J. Talbot
  • Department of Biosciences, University of Exeter, Geoffrey Pope Building, Stocker Road Exeter, EX4 4QD, United Kingdom of Great Britain and Northern Ireland
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/ Stephen G. Oliver
  • Faculty of Life Sciences, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
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/ Norman W. Paton
  • School of Computer Science, University of Manchester, Oxford Road, Manchester, M13 9PL, United Kingdom of Great Britain and Northern Ireland
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Published Online: 2016-10-18 | DOI: https://doi.org/10.1515/jib-2007-69

Abstract

The continuing and rapid increase in the number of fully sequenced genomes is creating new opportunities for comparative studies. However, although many genomic databases store data from multiple organisms, for the most part they provide limited support for comparative genomics. We argue that refocusing genomic data management to provide more direct support for comparative studies enables systematic identification of important relationships between species, thereby increasing the value that can be obtained from sequenced genomes. The principal result of the paper is a methodology, in which comparative analyses are constructed over a foundation based on sequence clusters and evolutionary relationships. This methodology has been applied in a systematic study of the fungi, and we describe how comparative analyses have been implemented as an analysis library over the e-Fungi data warehouse.

About the article

Published Online: 2016-10-18

Published in Print: 2007-12-01


Citation Information: Journal of Integrative Bioinformatics, Volume 4, Issue 3, Pages 112–122, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2007-69.

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© 2007 The Author(s). Published by Journal of Integrative Bioinformatics.. This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0

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[1]
Darren M. Soanes, Intikhab Alam, Mike Cornell, Han Min Wong, Cornelia Hedeler, Norman W. Paton, Magnus Rattray, Simon J. Hubbard, Stephen G. Oliver, Nicholas J. Talbot, and Niyaz Ahmed
PLoS ONE, 2008, Volume 3, Number 6, Page e2300

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