scholarly journals Phylogenetic Tree Construction for DNA Sequences using Clustering Methods

2012 ◽  
Vol 38 ◽  
pp. 1362-1366 ◽  
Author(s):  
Gayatri Mahapatro ◽  
Debahuti Mishra ◽  
Kailash Shaw ◽  
Sashikala Mishra ◽  
Tanushree Jena
Keyword(s):  
Phylogenetic Tree ◽  
Dna Sequences ◽  
Clustering Methods ◽  
Phylogenetic Tree Construction ◽  
Tree Construction

scholarly journals Phylogenetic Tree Construction Using K-Mer Forest- Based Distance Calculation

2020 ◽  
Vol 16 (07) ◽  
pp. 4 ◽  
Author(s):  
Gihan Gamage ◽  
Nadeeshan Gimhana ◽  
Indika Perera ◽  
Shanaka Bandara ◽  
Thilina Pathirana ◽  
...  
Keyword(s):  
Phylogenetic Tree ◽  
Dna Sequences ◽  
Phylogenetic Trees ◽  
Genetic Relatedness ◽  
Biological Information ◽  
Pairwise Distance ◽  
Phylogenetic Tree Construction ◽  
Distance Calculation ◽  
Alignment Free ◽  
Tree Construction

Phylogenetics is one of the dominant data engineering research disciplines based on biological information. More particularly here, we consider raw DNA sequences and do comparative analysis in order to come up with important conclusions. When representing evolutionary relationships among different organisms in a concise manner, the phylogenetic tree helps significantly. When constructing phylogenetic trees, the elementary step is to calculate the genetic distance among species. Alignment-based sequencing and alignment-free sequencing are the two main distance computation methods that are used to find genetic relatedness of different species. In this paper we propose a novel alignment-free, pairwise, distance calculation method based on k-mers and a state of art machine learning-based phylogenetic tree construction mechanism. With the proposed approach we can convert longer DNA sequences into compendious k-mer forests which gear up the efficiency of comparison. Later we construct the phylogenetic tree based on calculated distances with the help of an algorithm build upon k-medoid clustering, which guaranteed significant efficiency and accuracy compared to traditional phylogenetic tree construction methods.

scholarly journals Adaptive memory programming: local search parallel algorithms for phylogenetic tree construction

2010 ◽  
Vol 183 (1) ◽  
pp. 75-94 ◽  
Author(s):  
Jacek Blazewicz ◽  
Piotr Formanowicz ◽  
Pawel Kedziora ◽  
Pawel Marciniak ◽  
Przemyslaw Taront
Keyword(s):  
Local Search ◽  
Phylogenetic Tree ◽  
Parallel Algorithms ◽  
Adaptive Memory ◽  
Phylogenetic Tree Construction ◽  
Tree Construction

Phylogenetic tree construction based on 2D graphical representation

2006 ◽  
Vol 422 (1-3) ◽  
pp. 282-288 ◽  
Author(s):  
Bo Liao ◽  
Xinzhou Shan ◽  
Wen Zhu ◽  
Renfa Li
Keyword(s):  
Phylogenetic Tree ◽  
Graphical Representation ◽  
Phylogenetic Tree Construction ◽  
Tree Construction
Sign in / Sign up

Export Citation Format

Share Document