Alireza Darvish

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Widely used multiple alignment based techniques can give false results for single base mutation as the primary sequence of mutants and that of the wild types are very similar. We present a technique that uses signal processing methods along with biochemical properties of individual amino acids for the analysis of proteins. Each amino acid of mutant protein(More)
Estimating dynamic regulatory pathways using DNA microarray time-series can provide invaluable information about the dynamic interactions among genes and result in new methods of rational drug design. Even though several purely computational methods have been introduced for DNA pathway analysis, most of these techniques do not provide a fully interactive(More)
DNA microarray time-series provide the information vital to estimate the dynamic regulatory pathways and therefore predict the dynamic interaction among genes in time. While dynamic system identification theory has been applied to many fields of study, due to some practical limitations, this theory has been widely used to analyze DNA microarray time series.(More)
In this paper we propose a novel method to extract dynamic regulatory pathways from time-series DNA microarray data. To this aim, first a specialized clustering technique is applied that utilizes the available heuristic information about the biological system to form the clusters. Then, an auto regressive (AR) model is applied to model the interactions(More)
Dynamic regulatory pathways, estimated using DNA microarray time-series information, provide predictions of dynamic interactions among genes. Even though several analysis methods have been studied, most of them fall short in analyzing or observing these interactions in detail. In contrast to other methods, we have developed a visual approach based on the(More)
A new hierarchical method is proposed to analyze timeseries DNA microarray data to identify dynamic genetic pathways. Initially the hierarchical method applies a specialized clustering technique to incorporate the available heuristic information about biological system. Then, the prototypes of the resulting clusters are used as time-variables to develop an(More)
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