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A novel algorithm to reconstruct phylogenies using gene sequences and expression data
Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Mathematics, Applied Mathematics and Statistics.
Cambridge University.
2014 (English)In: International Proceedings of Chemical, Biological & Environmental Engineering; Environment, Energy and Biotechnology III, 2014, 8-12 p.Conference paper, Published paper (Refereed)
Abstract [en]

Phylogenies based on single loci should be viewed with caution and the best approach for obtaining robust trees is to examine numerous loci across the genome. It often happens that for the same set of species trees derived from different genes are in conflict between each other. There are several methods that combine information from different genes in order to infer the species tree. One novel approach is to use informationfrom different -omics. Here we describe a phylogenetic method based on an Ornstein–Uhlenbeck process that combines sequence and gene expression data. We test our method on genes belonging to the histidine biosynthetic operon. We found that the method provides interesting insights into selection pressures and adaptive hypotheses concerning gene expression levels.

Place, publisher, year, edition, pages
2014. 8-12 p.
National Category
Bioinformatics (Computational Biology) Evolutionary Biology Probability Theory and Statistics
Research subject
Bioinformatics; Mathematical Statistics; Statistics
Identifiers
URN: urn:nbn:se:uu:diva-235964OAI: oai:DiVA.org:uu-235964DiVA: diva2:762640
Conference
6th International Conference on Bioinformatics and Biomedical Technology
Note

Svenska institutet supported this work through their Östersjösamarbetet scholarship program.

Available from: 2014-11-12 Created: 2014-11-12 Last updated: 2015-03-04

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Bartoszek, Krzysztof

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CiteExportLink to record
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