Journal of Computer Engineering & Information TechnologyISSN : 2324-9307

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Short Communication, J Comput Eng Inf Technol Vol: 5 Issue: 3

Sequence Comparison, Classification and Phylogeny:Avoiding Hidden Assumptions and Speeding up Analyses

Soares I1,2,3* and Amorim A1,2,4
1I3S, Institute for Research and Innovation in Health, University of Porto, Rua Alfredo Allen, 208, 4200-135 Porto, Portugal
2IPATIMUP, Institute of Molecular Pathology and Immunology of the University of Porto, Rua Dr. Roberto Frias s/n, 4200-465 Porto, Portugal
3INESCC, Institute for Systems Engineering and Computers at Coimbra; Pólo II, Rua Silvio Lima, 3030-290 Coimbra, Portugal
4FCUP, Faculty of Sciences, University of Porto; Rua do Campo Alegre s/n, 4169-007 Porto, Portugal
Corresponding author : Inês Soares
INESCC, Institute for Systems Engineering and Computers at Coimbra; Pólo II, Rua Silvio Lima, 3030-290 Coimbra, Portugal
Tel: +351 938248358
E-mail: [email protected], [email protected]
Received: June 21, 2016 Accepted: July 11, 2016 Published: July 18, 2016
Citation: Soares I, Amorim A (2016) Sequence Comparison, Classification and Phylogeny: Avoiding Hidden Assumptions and Speeding up Analyses. J Comput Eng Inf Technol 5:3. doi:10.4172/2324-9307.1000155

Abstract

Sequence Comparison, Classification and Phylogeny: Avoiding Hidden Assumptions and Speeding up Analyses

A phylogeny is a synopsis of the evolutionary events that derived from a common ancestral genome producing the diversity currently known. During the last decades many approaches have been developed in order to address the problem of phylogeny reconstitution. Nevertheless, the reconstruction of the evolutionary process remains a serious challenge due to the complexity of the events leading to changes of nucleic acid sequences. Phylogeny reconstruction process is entirely dependent on the quality of the sequence comparison step, which remains a great challenge to research community up today, but also on the modeling of mutations responsible for the changes.

Keywords: Sequence comparison, Alignment, Mutation, Genetic distance, Similarity, Clustering, Phylogeny, Suffix tree, Words frequency

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