TN curve: a novel 3D graphical representation of DNA sequence based on trinucleotides and its applications

JF Yu, X Sun, JH Wang - Journal of theoretical biology, 2009 - Elsevier
In this paper, a novel 3D graphical representation of DNA sequence based on trinucleotides
is proposed. This representation allows direct inspection of composition as well as …

[PDF][PDF] Analysis of similarities/dissimilarities of DNA sequences based on a novel graphical representation

JF Yu, JH Wang, X Sun - MATCH Commun. Math. Comput …, 2010 - match.pmf.kg.ac.rs
According to the physiochemical property of the base at the first site, the 16 kinds of
dinucleotides are classified into four groups. Based on such classification, we propose a …

Normalized Lempel-Ziv complexity and its application in bio-sequence analysis

Y Zhang, J Hao, C Zhou, K Chang - Journal of mathematical chemistry, 2009 - Springer
In this article, we propose a new method to measure DNA similarity based on a normalized
Lempel-Ziv complexity scheme. The new method can weaken the effect of sequence length …

E-waste recycling as criteria for green computing approach: analysis by QFD tool

B Debnath, R Baidya, NT Biswas, R Kundu… - … Circuits and Systems …, 2015 - Springer
Green computing is an environmentally responsible approach to reduce electronic waste
and power consumption that helps in use of computing resources efficiently. With the …

Genome sequence comparison under a new form of tri-nucleotide representation based on bio-chemical properties of nucleotides

S Das, A Das, B Mondal, N Dey, DK Bhattacharya… - Gene, 2020 - Elsevier
Genetic sequence analysis, classification of genome sequence and evolutionary
relationship between species using their biological sequences, are the emerging research …

Positional difference and Frequency (PdF) based alignment-free technique for genome sequence comparison

S Dey, P Ghosh, S Das - Journal of Biomolecular Structure and …, 2024 - Taylor & Francis
In the field of computational biology, genome sequence comparison among different species
is essential and has applications in both the research and scientific fields. Owing to the …

Biochemical property based positional matrix: A new approach towards genome sequence comparison

S Dey, S Das, DK Bhattacharya - Journal of Molecular Evolution, 2023 - Springer
The growth of the genome sequence has become one of the emerging areas in the study of
bioinformatics. It has led to an excessive demand for researchers to develop advanced …

A tool preference choice method for RNA secondary structure prediction by SVM with statistical tests

CY Hor, CB Yang, CH Chang… - Evolutionary …, 2013 - journals.sagepub.com
The Prediction of RNA secondary structures has drawn much attention from both biologists
and computer scientists. Many useful tools have been developed for this purpose. These …

A new way to find similarity/dissimilarity of DNA sequences on the basis of dinucleotides representation

S Das, S Palit, AR Mahalanabish… - … in Communication Circuits …, 2015 - Springer
In this paper, we have introduced a new way of representation of dinucleotides. They are
directly represented by two-dimensional coordinates (x, y) in the Euclidean plane. By writing …

A computational method of predicting regulatory interactions in Arabidopsis based on gene expression data and sequence information

X Yu, H Gao, X Zheng, C Li, J Wang - Computational Biology and …, 2014 - Elsevier
Inferring transcriptional regulatory interactions between transcription factors (TFs) and their
targets has utmost importance for understanding the complex regulatory mechanisms in …