A novel alignment-free DNA sequence similarity analysis approach based on top-k n-gram match-up

2020 ◽  
Vol 100 ◽  
pp. 107693
Author(s):  
Emre Delibaş ◽  
Ahmet Arslan ◽  
Abdulkadir Şeker ◽  
Banu Diri
Keyword(s):  
Dna Sequence ◽  
Sequence Similarity ◽  
Analysis Approach ◽  
Similarity Analysis ◽  
Alignment Free ◽  
Free Dna ◽  
N Gram ◽  
Sequence Similarity Analysis

A New Approach for DNA Sequence Similarity Analysis based on Triplets of Nucleic Acid Bases

2010 ◽  
Vol 2 (4) ◽  
pp. 1-11
Author(s):  
Dan Wei ◽  
Qingshan Jiang ◽  
Sheng Li
Keyword(s):  
Nucleic Acid ◽  
Dna Sequence ◽  
Dna Sequences ◽  
Sequence Similarity ◽  
Similarity Analysis ◽  
Biological Sequence ◽  
Nucleic Acid Bases ◽  
New Approach ◽  
Characteristic Distribution ◽  
Sequence Similarity Analysis

Similarity analysis of DNA sequences is a fundamental research area in Bioinformatics. The characteristic distribution of L-tuple, which is the tuple of length L, reflects the valuable information contained in a biological sequence and thus may be used in DNA sequence similarity analysis. However, similarity analysis based on characteristic distribution of L-tuple is not effective for the comparison of highly conservative sequences. In this paper, a new similarity measurement approach based on Triplets of Nucleic Acid Bases (TNAB) is introduced for DNA sequence similarity analysis. The new approach characterizes both the content feature and position feature of a DNA sequence using the frequency and position of occurrence of TNAB in the sequence. The experimental results show that the approach based on TNAB is effective for analysing DNA sequence similarity.

scholarly journals A Novel Model for DNA Sequence Similarity Analysis Based on Graph Theory

2011 ◽  
Vol 7 ◽  
pp. EBO.S7364 ◽  
Author(s):  
Xingqin Qi ◽  
Qin Wu ◽  
Yusen Zhang ◽  
Eddie Fuller ◽  
Cun-Quan Zhang
Keyword(s):  
Graph Theory ◽  
Dna Sequence ◽  
Sequence Similarity ◽  
Similarity Analysis ◽  
Sequence Similarity Analysis ◽  
Novel Model

Application of rpoB sequence similarity analysis, REP-PCR and BOX-PCR for the differentiation of species within the genus Geobacillus

2008 ◽  
Vol 46 (3) ◽  
pp. 395-401 ◽  
Author(s):  
C. Meintanis ◽  
K.I. Chalkou ◽  
K. Ar. Kormas ◽  
D.S. Lymperopoulou ◽  
E.A. Katsifas ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Similarity Analysis ◽  
Sequence Similarity Analysis ◽  
Rpob Sequence
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