Aditya Kumar

Aditya Kumar
Tezpur University · Department of Molecular Biology and Biotechnology

PhD

About

26
Publications
3,714
Reads
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183
Citations
Additional affiliations
April 2017 - present
Tezpur University
Position
  • Professor (Assistant)
July 2016 - March 2017
Indian Institute of Science
Position
  • Research Associate
July 2008 - June 2016
Indian Institute of Science
Position
  • PhD Student
Education
August 2006 - July 2008
Tezpur University
Field of study
  • Molecular Biology and Biotechnology

Publications

Publications (26)
Article
Full-text available
Diabetes is a group of metabolic disorders characterized by elevated blood sugar levels, leading to many undesirable health consequences. There are many herbal formulations, traditionally used by the Northeast Indian population for disease management. These formulations require scientific validations to optimize their efficacy and increase their po...
Article
Full-text available
Rotavirus A (RVA) was detected in the stool of a 12-month-old child with diarrhea, mild fever, and vomiting. A viral metagenomic approach identified a Wa-like genotype G3P[8] strain named RVA/Human-wt/IND/RM25112/2016.
Article
Full-text available
Background Archaea are a vast and unexplored domain. Bioinformatic techniques might enlighten the path to a higher quality genome annotation in varied organisms. Promoter sequences of archaea have the action of a plethora of proteins upon it. The conservation found in a structural level of the binding site of proteins such as TBP, TFB, and TFE aids...
Article
Computational promoter identification in eukaryotes is a classical biological problem that should be refurbished with the availability of an avalanche of experimental data and emerging deep learning technologies. The current knowledge indicates that eukaryotic core promoters display multifarious signals such as TATA-Box, Inrelement, TCT, and Pause-...
Preprint
Scrub typhus is a zoonotic bacterial disease caused by Orientia tsutsugamushi and accounts for up to 20% of common febrile illnesses and hospitalizations. The main obstacle to vaccine development is the lack of identification of relevant immunodominant antigens that stimulate broad-spectrum immune responses, including antibody, CD4 + T cells, and C...
Poster
pehR, is a transcriptional regulatory gene in Ralstonia solanacearum F1C1 which causes lethal wilt disease in more than 450 plant species which include economically important plants such as tomato, chilly, brinjal, etc. The two-component regulatory system, pehSR is important for the activation and expression of pathogenicity and virulence genes of...
Preprint
Full-text available
For enumerating viable bacteria, traditional dilution plating to count colony forming units (CFU) has always been the preferred method in microbiology owing to its simplicity, albeit laborious and time-consuming. Similar CFU counts can be obtained by quantifying growing microcolonies in conjunction with the perks of a microscope. Here, we employed...
Article
Full-text available
All approved coronavirus disease 2019 (COVID-19) vaccines in current use are safe, effective, and reduce the risk of severe illness. Although data on the immunological presentation of patients with COVID-19 is limited, increasing experimental evidence supports the significant contribution of B and T cells towards the resolution of severe acute resp...
Article
Full-text available
A structural parametrization of genetic information into physical attributes enables the location of transcription factor binding sites in the archaeal genome. This study poses a novel method for promoter sequence location in putative regulators of archaea. Abstract The transcription machinery of archaea can be roughly classified as a simplified v...
Article
Nucleoid‐Associated Proteins (NAPs) maintain bacterial nucleoid configuration through their architectural properties of DNA bending, wrapping, and bridging. However, the contribution of DNA structural alterations to DNA‐NAP recognition at the genomic scale remains unresolved. Present work dissects the DNA sequence, shape and altered structural pref...
Article
The p53 tumor suppressor protein maintains the genome fidelity and integrity by modulating several cellular activities. It regulates these events by interacting with a heterogeneous set of response elements (REs) of regulatory genes in the background of chromatin configuration. At the p53-RE interface, both the base readout and torsional-flexibilit...
Article
Full-text available
The gene transcription of bacteria starts with a promoter sequence being recognized by a transcription factor found in the RNAP enzyme, this process is assisted through the conservation of nucleotides as well as other factors governing these intergenic regions. Faced with this, the coding of genetic information into physical aspects of the DNA such...
Article
Exobasidium vexans, a basidiomycete pathogen, is the causal organism of blister blight disease in tea. The molecular identification of the pathogen remains a challenge due to the limited availability of genomic data in sequence repositories and cryptic speciation within its genus Exobasidium. In this study, the nuclear internal transcribed spacer r...
Article
The role of G-quadruplexes in cellular physiology of human pathogenesis is an intriguing area of research. Nonetheless, their functional roles and evolutionary conservation have not been compared comprehensively in pathogenic forms of various bacterial genera and species. In the current in silico study, we addressed the role of G-quadruplex-forming...
Chapter
Full-text available
Mutations in genome are essential for evolution but if the frequency of mutation increases it can evince to be detrimental, for a steady maintenance there exist a detailed complex system of surveillance and repair of DNA defects. Therefore, fault in DNA repair processes raises the probability of genomic instability and cancer in organisms. Genome i...
Preprint
Full-text available
Researchers around the world are developing more than 145 vaccines (DNA/mRNA/whole-virus/viral-vector/protein-based/repurposed vaccine) against the SARS-CoV-2 and 21 vaccines are in human trials. However, a limited information is available about which SARS-CoV-2 proteins are recognized by human B- and T-cell immune responses. Using a comprehensive...
Article
Full-text available
DNA replication in eukaryotes is an intricate process, which is precisely synchronized by a set of regulatory proteins, and the replication fork emanates from discrete sites on chromatin called origins of replication (Oris). These spots are considered as the gateway to chromosomal replication and are stereotyped by sequence motifs. The cognate sequ...
Chapter
Full-text available
Regulation of gene expression is achieved by the presence of cis regulatory elements; these signatures are interspersed in the noncoding region and also situated in the codingregion of the genome. These elements orchestrate the gene expression process by regulat-ing the diferent steps involved in the low of genetic information. Transcription (DNA t...
Article
Full-text available
Transcription is an intricate mechanism and is orchestrated at the promoter region. The cognate motifs in the promoters are observed in only a subset of total genes across different domains of life. Hence, sequence-motif based promoter prediction may not be a holistic approach for whole genomes. Conversely, the DNA structural property, duplex stabi...
Article
Full-text available
Next-generation sequencing studies have revealed that a variety of transcripts are present in the prokaryotic transcriptome and a significant fraction of them are functional, being involved in various regulatory activities apart from coding for proteins. Identification of promoters associated with different transcripts is necessary for characteriza...
Article
Full-text available
Promoter regions play a key role in the process of transcription initiation and gene expression, hence promoter identification is an inherent component of the genome annotation process. Identification and characterization of promoters in fully sequenced genomes is a challenging and complex task. An analysis of sequence dependent DNA structural prop...
Chapter
Full-text available
Transcription initiation is the first step in the regulation of gene expression. Promoters are the regions of genomic DNA where transcription initiation machinery assembles and are generally characterized by presence of short nucleotide sequence motifs like TATA-box, Inr element, BRE, etc. However, apart from these motifs, promoter regions have bee...
Article
Full-text available
Promoter regions in the genomes of all domains of life show similar trends in several structural properties such as stability, bendability, curvature, etc. In current study we analysed the stability and bendability of various classes of promoter regions (based on the recent identification of different classes of transcription start sites) of Helico...
Article
Full-text available
Chargaff's rule of intra-strand parity (ISP) between complementary mono/oligonucleotides in chromosomes is well established in the scientific literature. Although a large numbers of papers have been published citing works and discussions on ISP in the genomic era, scientists are yet to find all the factors responsible for such a universal phenomeno...

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