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A novel algorithm to reconstruct phylogenies using gene sequences and expression data
Department of Mathematics, Uppsala University, Uppsala, Sweden.ORCID-id: 0000-0002-5816-4345
Computer Laboratory , University of Cambridge, Cambridge, Un ited Kingdom.
2014 (Engelska)Ingår i: International Proceedings of Chemical, Biological & Environmental Engineering; Environment, Energy and Biotechnology III, 2014, Vol. 70, s. 8-12Konferensbidrag, Publicerat paper (Refereegranskat)
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.

Ort, förlag, år, upplaga, sidor
2014. Vol. 70, s. 8-12
Nationell ämneskategori
Bioinformatik (beräkningsbiologi) Evolutionsbiologi Sannolikhetsteori och statistik
Forskningsämne
Bioinformatik; Matematisk statistik; Statistik
Identifikatorer
URN: urn:nbn:se:liu:diva-140853OAI: oai:DiVA.org:liu-140853DiVA, id: diva2:1141002
Konferens
3rd International Conference on Environment Energy and Biotechnology, (ICEEB 2014), 9th to 10th June 2014, Bangkok, Thailand
Anmärkning

Svenska institutet supported this work through their Östersjösamarbetet scholarship program.

Tillgänglig från: 2014-11-12 Skapad: 2017-09-13 Senast uppdaterad: 2019-09-04Bibliografiskt granskad

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Bartoszek, Krzysztof
Bioinformatik (beräkningsbiologi)EvolutionsbiologiSannolikhetsteori och statistik

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