Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes

Feng Chen; Aaron J. Mackey; Jeroen K. Vermunt; David S. Roos

doi:10.1371/journal.pone.0000383

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Peer-reviewed

Research Article

Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes

Feng Chen,

Affiliations Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America, Genomics Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
⨯
Aaron J. Mackey,

Current address: Informatics, GlaxoSmithKline, Collegeville, Pennsylvania, United States of America

Affiliations Department of Biology, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America, Genomics Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
⨯
Jeroen K. Vermunt,

Affiliation Department of Methodology and Statistics, Tilburg University, The Netherlands
⨯
David S. Roos

*To whom correspondence should be addressed. E-mail: droos@sas.upenn.edu

Affiliations Department of Biology, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America, Genomics Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
⨯

Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes

Feng Chen,
Aaron J. Mackey,
Jeroen K. Vermunt,
David S. Roos

Published: April 18, 2007
https://doi.org/10.1371/journal.pone.0000383

About the Authors

Feng Chen

Affiliations Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America, Genomics Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America

Aaron J. Mackey

Current address: Informatics, GlaxoSmithKline, Collegeville, Pennsylvania, United States of America

Affiliations Department of Biology, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America, Genomics Institute, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America

Jeroen K. Vermunt

Affiliation Department of Methodology and Statistics, Tilburg University, The Netherlands

David S. Roos

*To whom correspondence should be addressed. E-mail: droos@sas.upenn.edu

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: DR FC AM JV. Performed the experiments: FC. Analyzed the data: FC. Wrote the paper: DR FC JV.

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Protein domains
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BLAST algorithm
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Phylogenetics
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Genomics
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Phylogenetic analysis
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Eukaryota
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Genome analysis
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Functional genomics
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