Shubhra Sankar Ray

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This paper provides an overview of the application of evolutionary algorithms in certain bioinformatics tasks. Different tasks such as gene sequence analysis, gene mapping, deoxyribonucleic acid (DNA) fragment assembly, gene finding, microarray analysis, gene regulatory network analysis, phylogenetic trees, structure prediction and analysis of DNA,(More)
This paper deals with some new operators of genetic algorithms and demonstrates their effectiveness to the traveling salesman problem (TSP) and microarray gene ordering. The new operators developed are nearest fragment operator based on the concept of nearest neighbor heuristic, and a modified version of order crossover operator. While these result in(More)
Prediction of RNA structure is invaluable in creating new drugs and understanding genetic diseases. Several deterministic algorithms and soft computing-based techniques have been developed for more than a decade to determine the structure from a known RNA sequence. Soft computing gained importance with the need to get approximate solutions for RNA sequences(More)
MOTIVATION One of the important goals of biological investigation is to predict the function of unclassified gene. Although there is a rich literature on multi data source integration for gene function prediction, there is hardly any similar work in the framework of data source weighting using functional annotations of classified genes. In this(More)
MicroRNAs (miRNAs) play a major role in cancer development and also act as a key factor in many other diseases. In this investigation, we propose three methods for handling miRNA expressions. The first two methods determine whether a miRNA is indicating normal or cancer condition, and the third one determines how many miRNAs are supporting the cancer(More)
MicroRNAs (miRNA) are one kind of non-coding RNA which play many important roles in eukaryotic cell. Investigations on miRNAs show that miRNAs are involved in cancer development in animal body. In this article, a threshold based method to check the condition (normal or cancer) of miRNAs of a given sample/patient, using weighted average distance between the(More)
Different bioinformatics tasks like gene sequence analysis, gene finding, protein structure prediction and analysis, gene expression with microarray analysis and gene regulatory network analysis are described along with some classical approaches. The relevance of intelligent systems and neural networks to these problems is mentioned. Different neural(More)
A fuzzy rough granular self-organizingmap (FRGSOM) involving a 3-dimensional linguistic vector and connection weights, defined in an unsupervised manner, is proposed for clustering patterns having overlapping regions. Each feature of a pattern is transformed into a 3-dimensional granular space using a π-membership function with centers and scaling factors(More)