Browsing Prof. Tapash Chandra Ghosh by Title
Now showing items 1-20 of 45
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Compositional correlations in canine genome reflects similarity with human genes
(SPRINGER, 2006-05-31)The base compositional correlations that hold among various coding and noncoding regions of the canine genome have been analysed. The distribution pattern of genes, on the basis of GC 3 composition, shows a wide range ... -
The compositional transition of vertebrate genomes: an analysis of the secondary structure of the proteins encoded by human genes
(ELSEVIER SCIENCE, 2005-01-17)Fluctuations and increments of both C-3 and G(3) levels along the human coding sequences were investigated comparing two sets of Xenopus/human orthologous genes. The first set of genes shows minor differences of the GC(3) ... -
Compositional transitions between Oryza sativa and Arabidopsis thaliana genes are linked to the functional change of encoded proteins
(ELSEVIER SCIENCE, 2006-02)Compositional transition was previously reported between homologous pairs of Oryza sativa and Arabidopsis thaliana. We analysed 2041 homologous gene pairs of O. sativa and A. thaliana and found that the genes that underwent ... -
Correlations between genomic GC levels and optimal growth temperatures: some comments
(ACADEMIC PRESS, 2005-02-25)Regarding the existence of any specific correlation between optimal growth temperature and genomic GC levels, Musto et al. [FEBS Lett. 573 (2004) 73] have recently performed analysis on 20 prokaryotic families and showed ... -
Delving deeper into the unexpected correlation between gene expressivity and codon usage bias of Escherichia coli genome
(ADENINE, 2008-06)Biased usage of synonymous codons has been elucidated under the perspective of cellular tRNA abundance and more recently by the mRNA secondary structure folding stability of the corresponding genes. Taking advantage of ... -
Demethylation of (Cytosine-5-C-methyl) DNA and regulation of transcription in the epigenetic pathways of cancer development
(SPRINGER, 2008-06)Cancer cells and tissues exhibit genome wide hypomethylation and regional hypermethylation. CpG-methylation of DNA ((Me)CpG-DNA) is defined as the formation of a C-C covalent bond between the 5'-C of cytosine and the -CH(3) ... -
Different functional classes of genes are characterized by different compositional properties
(ELSEVIER, 2007-12-22)A compositional analysis on a set of human genes classified in several functional classes was performed. We found out that the GC3, i.e. the GC level at the third codon positions, of the genes involved in cellular metabolism ... -
Differential Selective Constraints Shaping Codon Usage Pattern of Housekeeping and Tissue-specific Homologous Genes of Rice and Arabidopsis
(OXFORD UNIV, 2008-12)Intra-genomic variation between housekeeping and tissue-specific genes has always been a study of interest in higher eukaryotes. To-date, however, no such investigation has been done in plants. Availability of whole genome ... -
Evolutionary constraints on hub and non-hub proteins in human protein interaction network: Insight from protein connectivity and intrinsic disorder
(ELSEVIER SCIENCE, 2009-04-01)It has been claimed that proteins with more interacting partners (hubs) are structurally more disordered and have a slow evolutionary rate. Here, in this paper we analyzed the evolutionary rate and structural disorderness ... -
Evolutionary forces in shaping the codon and amino acid usages in Bochmannia floridanus
(ADENINE PRESS,, 2004-08)Endosymbiotic relationship has great effect on ecological system. Codon and amino acid usages bias of endosymbiotic bacteria Blochmannia floridanus (whose host is an ant Camponotus floridanus) was investigated using ... -
Exploring the differences in evolutionary rates between monogenic and polygenic disease genes in human.
(Oxford University Press, 2010-04)Comparative analyses on disease and nondisease (ND) genes have greatly facilitated the understanding of human diseases. However, most studies have grouped all the disease genes together and have performed comparative ... -
Exploring the evolutionary rate differences of party hub and date hub proteins in Saccharomyces cerevisiae protein-protein interaction network
(ELSEVIER, 2009-01-15)Evolutionary rates of party hub and date hub proteins of Saccharomyces cerevisiae are analyzed under the perspective of ordered/disordered ness of proteins and the three dimensional structural context such as the solvent ... -
Genomic adaptation of prokaryotic organisms at high temperature.
(Biomedical Informatics, 2010-02-28)One of the central issues of evolutionary genomics is to find out the adaptive strategies of microorganisms to stabilize nucleic acid molecules under high temperature. Thermal adaptation hypothesis gives a link between G+C ... -
Homology modeling and molecular dynamics study of the interactions of SoxY and SoxZ: The central player of biochemical oxidation of sulfur anions in Pseudaminobacter salicylatoxidans
(Academic Journals, 2007)Microbial redox reactions of inorganic sulfur compounds, mainly the sulfur anions, are one of the vital reactions responsible for the environmental sulfur balance. These reactions are mediated by phylogenetically diverse ... -
Insights into the genomic features and evolutionary impact of the genes configuring duplicated pseudogenes in human
(ELSEVIER SCIENCE, 2010-09-24)Pseudogenes, regarded as 'genomic fossils', are DNA sequences resembling functional genes in perspective of sequence homology but completely non-functional. In this study, we explored the unique characteristic features of ... -
Investigation of the molecular evolution of nitrogen fixation using nucleotide triplet based condensed matrix method
(IJIB, 2010)Evolutionary history of nitrogen fixation has been retraced by analyzing nif H, D and K genes, and whole genomes from cyanobacteria, proteobacteria, clostridia, actinobacteria, green sulfur bacteria and archaea using ... -
Investigation on the causes of codon and amino acid usages variation between thermophilic Aquifex aeolicus and mesophilic Bacillus subtilis
(ADENINE PRESS,, 2004-10)Base composition, codon usages and amino acid usages have been analyzed by taking 529 orthologous sequences of Aquifex aeolicus and Bacillus subtilis, having different optimal growth temperatures. These two bacteria do not ... -
Multifunctionality dominantly determines the rate of human housekeeping and tissue specific interacting protein evolution
(ELSEVIER SCIENCE, 2009-06-15)Elucidation of the determinants of the rate of protein sequence evolution is one of the great challenges in evolutionary biology. It has been proposed that housekeeping genes are evolutionarily slower than tissue specific ... -
Nature of selective constraints on synonymous codon usage of rice differs in GC-poor and GC-rich genes
(ELSEVIER, 2007-10-01)Synonymous codon usage and cellular tRNA abundance are thought to be co-evolved in optimizing translational efficiencies in highly expressed genes. Here in this communication by taking the advantage of publicly available ... -
New Direction to the Solution of Protein Folding Problem
(ADENINE, 2011-02)No abstract available.