COVATOR: A Software for Chimeric Coronavirus Identification

Habib, Peter T.

doi:10.1101/2020.11.14.383075

Cited by 4 publications

(4 citation statements)

References 21 publications

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“…Interferons are a little powerful in combination with ribavirin. There is many efforts to use bioactive compounds in order to inhibit SARS-CoV-2 binding to ACE2 (P. T. Habib et al, 2021) and classi cation of viral proteins or corona virus from CT scan using machine learning (P. Habib, 2020;Randhawa et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Vaccine Design, Adaptation, and Cloning Design for Multiple Epitope-Based Vaccine Derived From SARS-CoV-2 Surface Glycoprotein (S), Membrane Protein (M) and Envelope Protein (E): In silico approach

Habib

2021

Preprint

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The SARS Coronavirus-2 (SARS-CoV-2) pandemic has become a global epidemic that has increased the scientific community's concern about developing and finding a counteraction against this lethal virus. So far, hundreds of thousands of people have been infected by the pandemic due to contamination and spread. This research was therefore carried out to develop potential epitope-based vaccines against the SARS-CoV-2 virus using reverse vaccinology and immunoinformatics approaches. Three potential vaccine constructs were designed after intensive computational experimentation, and one vaccine model was chosen as the best vaccine based on a molecular docking analysis that is intended to work efficiently against SARS-CoV-2. In order to verify biological stability and find an appropriate mass production technique for the chosen vaccine, molecular dynamics simulation, and silico codon adaptation studies were subsequently carried out. This study should help to maintain current research efforts to secure a definitive preventive measure against this contagious disease.

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Section: Introductionmentioning

confidence: 99%

Vaccine Design, Adaptation, and Cloning Design for Multiple Epitope-Based Vaccine Derived From SARS-CoV-2 Surface Glycoprotein (S), Membrane Protein (M) and Envelope Protein (E): In silico approach

Habib

2021

Preprint

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“…Therefore, there is no understanding of the assessment of drug toxicity at the molecular interaction level, relying only on this method. Different methods and techniques should be used to control any possible pandemic of the Nipah virus, such as using machine learning for detection of different strains [19,20], early detection of respiratory syndromes, and developing new drugs or scanning for the possible molecule that may target and inhibit viral life cycle [21].…”

Section: Introductionmentioning

confidence: 99%

Investigation of Anti-Coronavirus, Anti-HCV, Nucleotide Inhibitors, and Bioactive Molecules efficacy Against RNA-directed RNA polymerase of Nipah Virus: Molecular Docking Study

Habib¹

2021

Front Health Infor

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Introduction: The infections with the Nipah virus (NiV) are highly infectious and may lead to severe febrile encephalitis. High mortality rates in southeastern Asia, including Bengal, Malaysia, Papua New Guinea, Vietnam, Cambodia, Indonesia, Madagascar, the Philippines, Thailand, and India, have been reported in NiV outbreaks. Considering the high risk of an epidemic, NiV was declared a priority pathogen by the World Health Organization. However, for the treatment of this infection, there is no effective therapy or approved FDA medicines. RNA-dependent polymerase RNA (RdRp) plays an important role in viral replication among the nine well-known proteins of NiV.Material and Methods: Fourteen antiviral molecules have been computerized for NiV RNA-dependent RNA polymerase and demonstrated a potential inhibition effect against coronavirus (NiV-RdRp). A multi-step molecular docking process, followed by extensive analyzes of molecular binding interactions, binding energy estimates, synthetic accessibility assessments, and toxicity tests.Results: Molecular docking analysis reveals that Uprifosbuvir is the most suitable inhibitor for RdRp of Nipah Virus regarding the binding affinity and binding in the target cavity. Although, such studies need clinical confirmation.Conclusion: The role of anti-viral molecules as a ligand against RNA-dependent RNA polymerase is critical important in the current era. Computational tools such as molecular docking has proven its power in the analysis of molecules interaction. Our analysis reveals the Uprifosbuvir might be a candidate RdRp inhibitor. This study should further investigate the properties of the already identified anti-viral molecules followed by a pharmacological investigation of these in-silico findings in suitable models.

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“…Around 126,841.807 cases (COVID-19) of coronavirus disease 2019 and 2,782,099 cases (Worldometers.info/Coronavirus/) were reported until 27/03/2021. Scientists over the world exhibited all efforts to understand and nd a drug-using repurposing approach (1-4), utilizing machine learning and arti cial intelligence for more understanding (5)(6)(7)(8)(9), and design in silico vaccine (10)(11)(12)(13). The pandemic outbreak of SARS-CoV-2 or COVID-19 caused a disaster and caused a sense of serious insecurity and panic (14,15).…”

Section: Introductionmentioning

confidence: 99%

Interactome, Network, and Enrichment Motif Analysis Reveals Possible Linkage Between Human Mental Disorders, Emotions, and Coronavirus: In-Silico Insight

Habib

2021

Preprint

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The pandemic of COVID-19 has caused a global crisis. Today, everybody focuses on COVID-19 infection prevention, preparation, and discussion of physical health effects issues. It is important to understand, however, that a few will face life-threatening negative effects on physical health, but that all people will face the negative impact of the pandemic on mental health. COVID-19 hospitals are established in different locations to address the physical health implications of the pandemic. However, it is necessary to understand the effects of infections on mental health more effectively to prevent the negative consequences of infection. Here, we try to find out how the infection could affect mental health. We identify motifs in SARS-CoV-2 that are predicted to interact with human transcription factors (TF). Those TFs regulating behavior and mental health. Our results show that SARS-CoV-2 infection may lead to overactivation or inhibition of critical genes already known to affect behavior and mental health. This study is still limited to in silico limits so, clinical investigation needs to be addressed to assess our hypothesis.

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COVATOR: A Software for Chimeric Coronavirus Identification

Cited by 4 publications

References 21 publications

Vaccine Design, Adaptation, and Cloning Design for Multiple Epitope-Based Vaccine Derived From SARS-CoV-2 Surface Glycoprotein (S), Membrane Protein (M) and Envelope Protein (E): In silico approach

Vaccine Design, Adaptation, and Cloning Design for Multiple Epitope-Based Vaccine Derived From SARS-CoV-2 Surface Glycoprotein (S), Membrane Protein (M) and Envelope Protein (E): In silico approach

Investigation of Anti-Coronavirus, Anti-HCV, Nucleotide Inhibitors, and Bioactive Molecules efficacy Against RNA-directed RNA polymerase of Nipah Virus: Molecular Docking Study

Interactome, Network, and Enrichment Motif Analysis Reveals Possible Linkage Between Human Mental Disorders, Emotions, and Coronavirus: In-Silico Insight

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