A 2D graphical representation of DNA sequence based on dual nucleotides and its application

2008 ◽  
Vol 109 (5) ◽  
pp. 948-958 ◽  
Author(s):  
Zanbo Liu ◽  
Bo Liao ◽  
Wen Zhu ◽  
Guohua Huang
Keyword(s):  
Dna Sequence ◽  
Graphical Representation

Some Notes on 2-D Graphical Representation of DNA Sequence

2002 ◽  
Vol 42 (3) ◽  
pp. 529-533 ◽  
Author(s):  
Yachun Liu ◽  
Xiaofeng Guo ◽  
Jin Xu ◽  
Linqiang Pan ◽  
Shiying Wang
Keyword(s):  
Dna Sequence ◽  
Graphical Representation

4D Graphical representation research of DNA sequences

2015 ◽  
Vol 08 (01) ◽  
pp. 1550004 ◽  
Author(s):  
Chengjie Tan ◽  
Shanshan Li ◽  
Ping Zhu
Keyword(s):  
Dna Sequence ◽  
Dna Sequences ◽  
Graphical Representation ◽  
Hierarchical Cluster ◽  
Positive Outcome ◽  
Biological Information ◽  
Terminal Point ◽  
Base Pairs ◽  
Representation Method ◽  
The Times

Graphical representation of DNA sequences is a key component in studying biological problems. In order to gain new insights in DNA sequences, this paper combined the digitized methods of single-base, base pairs and coding in triplet bases with the times of base appearing, and then a novel 4D graphical representation method of DNA sequences was put forward. It was a one-to-one correspondence of the arbitrary DNA sequence and 4D graphical representation, that avoided causing non-unique 4D graphical representation and overlapping lines. The method could reflect the biological information features of DNA sequence more comprehensively and effectively without any losses. Based on the 4D graphical representation, we used the geometric center of 4D graphical representation as eigenvalue of DNA sequences analyses, which kept the original features of the data, and then established the Euclidean distances and included angles between vectors' terminal point for similarity analyses of the first extron of the beta-globulin gene among 11 species. Finally, we established the graph of systematic hierarchical cluster analysis of 11 species to observe more easily the relationship between species. A positive outcome was reached, and the results were in accord with biological taxonomy, which also supported the rationality and effectiveness of the novel 4D graphical representation.

scholarly journals Estimation of Similarity between DNA Sequences and Its Graphical Representation

2020 ◽  
Vol 9 (1) ◽  
pp. 43-51
Keyword(s):  
Sequence Analysis ◽  
Molecular Biology ◽  
Dna Sequence ◽  
Dna Sequences ◽  
Graphical Representation ◽  
Similarity Analysis ◽  
Biological Sequence ◽  
Field Of Study ◽  
Biological Sequence Analysis ◽  
Wide Range

Bioinformatics, which is now a well known field of study, originated in the context of biological sequence analysis. Recently graphical representation takes place for the research on DNA sequence. Research in biological sequence is mainly based on the function and its structure. Bioinformatics finds wide range of applications specifically in the domain of molecular biology which focuses on the analysis of molecules viz. DNA, RNA, Protein etc. In this review, we mainly deal with the similarity analysis between sequences and graphical representation of DNA sequence.

On 2D graphical representation of DNA sequence of nondegeneracy

2005 ◽  
Vol 411 (1-3) ◽  
pp. 28-32 ◽  
Author(s):  
Yusen Zhang ◽  
Bo Liao ◽  
Kequan Ding
Keyword(s):  
Dna Sequence ◽  
Graphical Representation

DNA Sequence Visualization

2011 ◽  
pp. 917-934
Author(s):  
Hsuan T. Chang
Keyword(s):  
Signal Processing ◽  
Feature Extraction ◽  
Dna Sequence ◽  
Sequence Alignment ◽  
Dna Sequences ◽  
Graphical Representation ◽  
Visualization Process ◽  
Potential Applications ◽  
Signal Processing Algorithms ◽  
Processing Algorithms

This chapter introduces various visualization (i.e., graphical representation) schemes of symbolic DNA sequences, which are basically represented by character strings in conventional sequence databases. Several visualization schemes are reviewed and their characterizations are summarized for comparison. Moreover, further potential applications based on the visualized sequences are discussed. By understanding the visualization process, the researchers will be able to analyze DNA sequences by designing signal processing algorithms for specific purposes such as sequence alignment, feature extraction, and sequence clustering, etc.

DNA Sequence Visualization

2011 ◽  
pp. 63-84
Author(s):  
Hsuan T. Chang
Keyword(s):  
Signal Processing ◽  
Feature Extraction ◽  
Dna Sequence ◽  
Sequence Alignment ◽  
Dna Sequences ◽  
Graphical Representation ◽  
Visualization Process ◽  
Potential Applications ◽  
Signal Processing Algorithms ◽  
Processing Algorithms

This chapter introduces various visualization (i.e., graphical representation) schemes of symbolic DNA sequences, which are basically represented by character strings in conventional sequence databases. Several visualization schemes are reviewed and their characterizations are summarized for comparison. Moreover, further potential applications based on the visualized sequences are discussed. By understanding the visualization process, the researchers will be able to analyze DNA sequences by designing signal processing algorithms for specific purposes such as sequence alignment, feature extraction, and sequence clustering, etc.

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