Title |
Orthology prediction at scalable resolution by phylogenetic tree analysis
|
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Published in |
BMC Bioinformatics, March 2007
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DOI | 10.1186/1471-2105-8-83 |
Pubmed ID | |
Authors |
René TJM van der Heijden, Berend Snel, Vera van Noort, Martijn A Huynen |
Abstract |
Orthology is one of the cornerstones of gene function prediction. Dividing the phylogenetic relations between genes into either orthologs or paralogs is however an oversimplification. Already in two-species gene-phylogenies, the complicated, non-transitive nature of phylogenetic relations results in inparalogs and outparalogs. For situations with more than two species we lack semantics to specifically describe the phylogenetic relations, let alone to exploit them. Published procedures to extract orthologous groups from phylogenetic trees do not allow identification of orthology at various levels of resolution, nor do they document the relations between the orthologous groups. |
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Geographical breakdown
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Netherlands | 3 | 2% |
Brazil | 2 | 1% |
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United Kingdom | 2 | 1% |
Spain | 2 | 1% |
Mexico | 1 | <1% |
Australia | 1 | <1% |
Luxembourg | 1 | <1% |
Other | 0 | 0% |
Unknown | 128 | 86% |
Demographic breakdown
Readers by professional status | Count | As % |
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Student > Ph. D. Student | 42 | 28% |
Researcher | 37 | 25% |
Student > Master | 20 | 13% |
Professor | 10 | 7% |
Professor > Associate Professor | 8 | 5% |
Other | 24 | 16% |
Unknown | 8 | 5% |
Readers by discipline | Count | As % |
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Biochemistry, Genetics and Molecular Biology | 26 | 17% |
Computer Science | 12 | 8% |
Mathematics | 3 | 2% |
Chemistry | 2 | 1% |
Other | 6 | 4% |
Unknown | 13 | 9% |