Search Results - "SATAPATHY, SIDDHARTHA SANKAR"

High frequency of transition to transversion ratio in the stem region of RNA secondary structure of untranslated region of SARS-CoV-2 by Dash, Madhusmita, Meher, Preetisudha, Aditya Kumar, Satapathy, Siddhartha Sankar, Namsa, Nima D

“…The propensity of nucleotide bases to form pairs, causes folding and the formation of secondary structure in the RNA. Therefore, purine (R): pyrimidine (Y)…”
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Is the screen time duration affecting children's language development? - A scoping review by Bhutani, Priyank, Gupta, Manu, Bajaj, Gagan, Deka, Ramesh Chandra, Satapathy, Siddhartha Sankar, Ray, Suvendra Kumar

“…How parents interact with their children and what they are exposed to can have a big impact on a child's language development. Nowadays, videos on different…”
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The Entner-Doudoroff and Nonoxidative Pentose Phosphate Pathways Bypass Glycolysis and the Oxidative Pentose Phosphate Pathway in Ralstonia solanacearum by Jyoti, Poonam, Shree, Manu, Joshi, Chandrakant, Prakash, Tulika, Ray, Suvendra Kumar, Satapathy, Siddhartha Sankar, Masakapalli, Shyam Kumar

“…In , a devastating phytopathogen whose metabolism is poorly understood, we observed that the Entner-Doudoroff (ED) pathway and nonoxidative pentose phosphate…”
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Cotranslational protein folding reveals the selective use of synonymous codons along the coding sequence of a low expression gene by RAY, SUVENDRA KUMAR, BARUAH, VISHWA JYOTI, SATAPATHY, SIDDHARTHA SANKAR, BANERJEE, RAJAT

“…If selection is equally operative on HEGs and LEGs then mutation should also be equally effective on both the classes of genes. Study of mutation rates by the…”
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Machine learning approach identifies prominent codons from different degenerate groups influencing gene expression in bacteria by Sen, Piyali, Kurmi, Annushree, Ray, Suvendra Kumar, Satapathy, Siddhartha Sankar

“…Unequal usage of synonymous codons is known as codon usage bias (CUB), which is generally different between the high‐expression genes (HEG) and low‐expression…”
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Differentially used codons among essential genes in bacteria identified by machine learning-based analysis by Kurmi, Annushree, Sen, Piyali, Dash, Madhusmita, Ray, Suvendra Kumar, Satapathy, Siddhartha Sankar

“…Codon usage bias (CUB), the uneven usage of synonymous codons encoding the same amino acid, differs among genes within and across bacteria genomes. CUB is…”
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Codon degeneracy and amino acid abundance influence the measures of codon usage bias: improved Nc (N̂c) and ENCprime (N̂′c) measures by Satapathy, Siddhartha Sankar, Sahoo, Ajit Kumar, Ray, Suvendra Kumar, Ghosh, Tapash Chandra

“…Effective number of codons (N^c) and its variant N^′c (effective number of codons prime) are the two widely used methods for measuring unequal usage of…”
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Stem Region of tRNA Genes Favors Transition Substitution Towards Keto Bases in Bacteria by Sen, Piyali, Aziz, Ruksana, Deka, Ramesh C., Feil, Edward J., Ray, Suvendra Kumar, Satapathy, Siddhartha Sankar

“…Transversion and transition mutations have variable effects on the stability of RNA secondary structure considering that the former destabilizes the double…”
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Missed cites by Satapathy, Siddhartha Sankar, Ray, Suvendra Kumar

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Incorporation of transition to transversion ratio and nonsense mutations, improves the estimation of the number of synonymous and non-synonymous sites in codons by Aziz, Ruksana, Sen, Piyali, Beura, Pratyush Kumar, Das, Saurav, Tula, Debapriya, Dash, Madhusmita, Namsa, Nima Dondu, Deka, Ramesh Chandra, Feil, Edward J, Satapathy, Siddhartha Sankar, Ray, Suvendra Kumar

“…A common approach to estimate the strength and direction of selection acting on protein coding sequences is to calculate the dN/dS ratio. The method to…”
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Discrepancy among the synonymous codons with respect to their selection as optimal codon in bacteria by Satapathy, Siddhartha Sankar, Powdel, Bhesh Raj, Buragohain, Alak Kumar, Ray, Suvendra Kumar

“…The different triplets encoding the same amino acid, termed as synonymous codons, are not equally abundant in a genome. Factors such as G + C% and tRNA are…”
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Codon degeneracy and amino acid abundance influence the measures of codon usage bias: improved Nc (N sub(c)) and ENCprime (N super(') sub(c)) measures by Satapathy, Siddhartha Sankar, Sahoo, Ajit Kumar, Ray, Suvendra Kumar, Ghosh, Tapash Chandra

“…Effective number of codons ([Formulaomitted]) and its variant [Formulaomitted] (effective number of codons prime) are the two widely used methods for measuring…”
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Selection on GGU and CGU Codons in the High Expression Genes in Bacteria by Satapathy, Siddhartha Sankar, Powdel, Bhesh Raj, Dutta, Malay, Buragohain, Alak Kumar, Ray, Suvendra Kumar

“…The fourfold degenerate site (FDS) in coding sequences is important for studying the effect of any selection pressure on codon usage bias (CUB) because…”
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Constraint on di-nucleotides by codon usage bias in bacterial genomes by Satapathy, Siddhartha Sankar, Powdel, Bhes Raj, Dutta, Malay, Buragohain, Alak Kumar, Ray, Suvendra Kumar

“…It has been reported earlier that the relative di-nucleotide frequency (RDF) in different parts of a genome is similar while the frequency is variable among…”
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Transfer RNA Gene Numbers may not be Completely Responsible for the Codon Usage Bias in Asparagine, Isoleucine, Phenylalanine, and Tyrosine in the High Expression Genes in Bacteria by Satapathy, Siddhartha Sankar, Dutta, Malay, Buragohain, Alak Kumar, Ray, Suvendra Kumar

“…It is generally believed that the effect of translational selection on codon usage bias is related to the number of transfer RNA genes in bacteria, which is…”
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Higher tRNA diversity in thermophilic bacteria: A possible adaptation to growth at high temperature by Satapathy, Siddhartha Sankar, Dutta, Malay, Ray, Suvendra Kumar

“…We have done a comparative study of tRNA diversity and total tRNA genes among different strains of bacteria with respect to the optimum growth temperature of…”
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Comparative analysis of codon usage bias in Crenarchaea and Euryarchaea genome reveals differential preference of synonymous codons to encode highly expressed ribosomal and RNA polymerase proteins by BARUAH, VISHWA JYOTI, SATAPATHY, SIDDHARTHA SANKAR, POWDEL, BHESH RAJ, KONWARH, ROCKTOTPAL, BURAGOHAIN, ALAK KUMAR, RAY, SUVENDRA KUMAR

“…The present study was undertaken to investigate the pattern of optimal codon usage in Archaea. Comparative analysis was executed to understand the pattern of…”
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Variable correlation of genome GC% with transfer RNA number as well as with transfer RNA diversity among bacterial groups: α-Proteobacteria and Tenericutes exhibit strong positive correlation by Satapathy, Siddhartha Sankar, Dutta, Malay, Ray, Suvendra Kumar

“…Mainly two selective forces are thought to affect transfer RNA (tRNA) gene numbers in cells: firstly, transfer RNA genes have coevolved with codon usage to…”
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Erratum to: Transfer RNA Gene Numbers may not be Completely Responsible for the Codon Usage Bias in Asparagine, Isoleucine, Phenylalanine, and Tyrosine in the High Expression Genes in Bacteria by Satapathy, Siddhartha Sankar, Dutta, Malay, Buragohain, Alak Kumar, Ray, Suvendra Kumar

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Variable correlation of genome GC% with transfer RNA number as well as with transfer RNA diversity among bacterial groups: a-Proteobacteria and Tenericutes exhibit strong positive correlation by Satapathy, Siddhartha Sankar, Dutta, Malay, Ray, Suvendra Kumar

“…Mainly two selective forces are thought to affect transfer RNA (tRNA) gene numbers in cells: firstly, transfer RNA genes have coevolved with codon usage to…”
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