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A novel k-word relative measure for sequence comparison

Paper ID Volume ID Publish Year Pages File Format Full-Text
15096 1374 2014 8 PDF Available
Title
A novel k-word relative measure for sequence comparison
Abstract

•The new normalized k-word average relative distance is proposed in this paper.•A new method is suggested to reduce the matrix dimension, can greatly lessen the amount of calculation and operation time.•The phylogenetic trees is plotted based on the new normalized k-word average relative distance.•The AUC is calculated to test the effectiveness of this new distance.

In order to extract phylogenetic information from DNA sequences, the new normalized k-word average relative distance is proposed in this paper. The proposed measure was tested by discriminate analysis and phylogenetic analysis. The phylogenetic trees based on the Manhattan distance measure are reconstructed with k ranging from 1 to 12. At the same time, a new method is suggested to reduce the matrix dimension, can greatly lessen the amount of calculation and operation time. The experimental assessment demonstrated that our measure was efficient. What's more, comparing with other methods’ results shows that our method is feasible and powerful for phylogenetic analysis.

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Keywords
DNA sequences; Discriminate analysis; Phylogenetic analysis; Phylogenetic trees
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A novel k-word relative measure for sequence comparison
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Publisher
Database: Elsevier - ScienceDirect
Journal: Computational Biology and Chemistry - Volume 53, Part B, December 2014, Pages 331–338
Authors
, , , , ,
Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us