Mathematical Modeling Approaches to Understanding Severe Acute Respiratory Syn-drome Coronavirus 2 (SARSCoV-2) DNA Sequences Linked Coronavirus Disease (COVID-19) for Discovery of Potential New Drugs

Dawoudi, Mohammad Reza

doi:10.38125/oajbs.000173

Cited by 3 publications

(2 citation statements)

References 10 publications

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“…16 To identify variety of repeats including Inverted repeats, Direct repeats, MR's, SSR's, triplet repeats & other kinds present in genome sequences is a curiosity based research work which utilize the power of bioinformatics in modern time . Various tools & approaches 17,18 , mathematical models 19 and bioinformatics based pipelines 20 are designed to identify them. The focus of our investigation is on identification of Mirror repeats (MR's) using a manual bioinformatics based approach refers to as FPCB (FASTA PARALLEL COMPLEMENT BLAST).This approach requires some simple steps and the uses of freely accessible public domain databases to identify MR's.…”

Section: Introductionmentioning

confidence: 99%

In-silico evaluation of ‘Mirror Repeats’ In HIV Genome

Usha¹,

Dinesh²

2022

Int J Life Sci Pharm Res

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The repetitive sequences played an important role in the characterization of both prokaryotic & eukaryotic organisms. Various different patterns of repetitive sequences have also been identified in organisms. Among all the repeat sequences. Mirror Repeats (MR`s) play an important role in various types of neurological disorders. These MR`s have also been reported for structure determination of genomes, triplex DNA formation & various other genome functions. We have followed a distinguished method referred to as FPCB (FASTA PARALLEL COMPLEMENT BLAST) for the identification of MR`s. The above said method used to identify MR’s in both types of HIV viruses (HIV-1 & HIV-2). Present investigation reported that MR’s are frequently distributed in all the regions of the genomes of both types. As a result, 232 & 248 total numbers of MR`s identified in both the HIV-1 & HIV-2 genome respectively. In addition, it was also revealed that the majority of the identified sequences are imperfect. The maximum length of MR`s in HIV-1 is of 47 nucleotides (NTD`s), however in case of HIV-2, it is of 49 nucleotides (NTD`s). Present investigation will be helpful for further development of a link between mirror repeats and host genome, which will be a new trend to block the viral integration as well as pathogenicity.

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Section: Introductionmentioning

confidence: 99%

In-silico evaluation of ‘Mirror Repeats’ In HIV Genome

Usha¹,

Dinesh²

2022

Int J Life Sci Pharm Res

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“…DNA tracks with mirror symmetries were reported in many eukaryotic species ranging from yeast to humans (24,25) , chloroplast genome of Nicotiana tabaccum plants (26)(27)(28) and recently in the deadly SARS-CoV-2 viral strain (29) . Our previous work has also reported the presence of mirror repeats in the flowering genes of Arabidopsis thaliana (30) and in the genome of HIV (31) .…”

Section: Introductionmentioning

confidence: 99%

In Silico Analysis of Structural Photosynthetic Genes of Arabidopsis thaliana for Unique Mirror Repeats

Yadav¹,

Yadav²,

Sharma³

2022

IJST

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Objectives:The underlying work explores mirror sequences in the photosynthetic genes of Arabidopsis thaliana. At present, these sequences are standing at the forefront to be explored for their origin, distribution and function in plants. Methods: FPCB, a recently developed bioinformatics approach was utilized for identification of mirror sequences. It is a three step strategy based on pattern matching of alignments, produced after aligning gene sequence and its complement using mega-BLAST. This algorithm was quick and efficient enough to characterize a range of mirror sequences. Findings: All the analyzed genes were reported to harbor great variety of mirror sequences at quite high frequencies. LHCA1 gene have the highest total count of these sequences and ATPB gene have lowest of all. A total of 401 unique mirror sequences of different lengths and compositions were reported in the twelve selected genes. Promoter motifs were found to be greatly enriched with these repeats. Eleven mirror sequences of significant lengths were also reported using the above approach. Novelty: This work is the very first attempt to characterize photosynthetic genes of Arabidopsis thaliana for mirror repeats. This will further aggravate efforts to develop fingerprinting techniques based on these unique mirror sequences, which are very powerful tools to study taxonomic and evolutionary relationships. Mirror sequences are also potential candidates as drug delivery systems and in molecular medicine.

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Mathematical modeling of SARS-nCoV-2 virus in Tamil Nadu, South India

Shankaranarayanan

Wei

2022

MBE

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<abstract><p>The purpose of this paper is to build a mathematical model for the study of the roles of lock-down, social distancing, vaccination, detection efficiency, and health care capacity planning of the COVID-19 pandemic taking into account the demographic topology of the State of Tamil Nadu, India. Two mathematical models are proposed for the evolution of the first and second wave of COVID-19 pandemic. The model for the first wave considers lock-down orders, social distancing measures, and detection efficiency. The model for the second wave considers more sub-populations and incorporates two more elements, vaccination and health care capacity. Daily reported data on the evolution of the COVID-19 pandemic are used to determine the parameter values. The dynamics produced by the mathematical model closely follow the evolution of COVID-19 in the State of Tamil Nadu. Numerical simulation shows that the lock-down effect is limited. Social distancing implementation and detection of positive cases are relatively ineffective compared with other big cities. Shortage of health care resources is one of the factors responsible for rapidly spreading in the second wave in Tamil Nadu.</p></abstract>

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Mathematical Modeling Approaches to Understanding Severe Acute Respiratory Syn-drome Coronavirus 2 (SARSCoV-2) DNA Sequences Linked Coronavirus Disease (COVID-19) for Discovery of Potential New Drugs

Abstract: How to cite this article: Mohammad Reza D. Mathematical Modeling Approaches to Understanding Severe Acute Respiratory Syn-drome Coronavirus 2 (SARSCoV-2) DNA Sequences Linked Coronavirus Disease (COVID-19) for Discovery of Potential New Drugs. 2020 -2(2) OAJBS. ID.000173.

Cited by 3 publications

References 10 publications

In-silico evaluation of ‘Mirror Repeats’ In HIV Genome

In-silico evaluation of ‘Mirror Repeats’ In HIV Genome

In Silico Analysis of Structural Photosynthetic Genes of Arabidopsis thaliana for Unique Mirror Repeats

Mathematical modeling of SARS-nCoV-2 virus in Tamil Nadu, South India

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