SLIWAK, Julie (2016) Phylogenetic trees: identifying properties of informative genomic sites. PRE - Research Project, ENSTA.



Being a tool to study evolution, phylogenetic trees are central in biology. Inferred from sequence data, they permit to visualise and understand the possible evolution of organisms,genes or strains. Then, analysing what parts of sequences (ie which genomic sites) are informative to construct the best phylogenetic tree would be useful: for instance, to use the most relevant sequence data or to suppress non-informative sites to shorten the sequences which can be really long. In this project we want to highlight properties of these informative sites (homoplasy, high/low mutation rate, ...). In order to do it, simulations have been done to simulate evolution along a phylogenetic tree and a function to introduce homoplasy in a tree has been created. These steps precede simulations of phylogenetic trees inferred from sequence data with particular sites removed. These simulations will permit to identify, if some, biological properties of informative sites.

Item Type:Thesis (PRE - Research Project)
Uncontrolled Keywords:phylogenetic tree - sequence data - informative sites - homoplasy - mutation rate
Subjects:Mathematics and Applications
ID Code:6909
Deposited By:Julie Sliwak
Deposited On:08 mars 2017 16:52
Dernière modification:08 mars 2017 16:52

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