Recent computational drug repositioning strategies against SARS-CoV-2

Lu, Lu; Qin, Jiale; Chen, Jiandong; Yu, Na; Miyano, Satoru; Deng, Zhenzhong; Li, Chen

doi:10.1016/j.csbj.2022.10.017

Cited by 7 publications

(3 citation statements)

References 92 publications

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“…Subsequently, ritonavir-boosted nirmatrelvir (Paxlovid), molnupiravir, and certain anti-SARS-CoV-2 monoclonal antibodies received emergencyuse authorizations from the FDA for the treatment of COVID-19 [5][6][7]. Many emerging methods [8][9][10][11][12][13][14][15][16][17][18] are being developed for drug screening and repurposing to identify antiviral targets for the treatment of COVID-19.…”

Section: Introductionmentioning

confidence: 99%

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Fuzzy Optimization for Identifying Antiviral Targets for Treating SARS-CoV-2 Infection in the Heart

Chu

Wang

2023

Preprint

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In this paper, a fuzzy hierarchical optimization framework is proposed for identifying potential antiviral targets for treating severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in the heart. The proposed framework comprises four objectives for evaluating the elimination of viral biomass growth and the minimization of side effects during treatment. In the application of the framework, Dulbecco’s Modified Eagle Medium (DMEM) and Ham’s medium were used as uptake nutrients on an antiviral target discovery platform. The prediction results from the framework reveal that most of the antiviral enzymes in the aforementioned media are involved in fatty acid metabolism and amino acid metabolism. However, six enzymes involved in cholesterol biosynthesis in Ham’s medium and three enzymes involved in glycolysis in DMEM are unable to eliminate the growth of the SARS-CoV-2 biomass. Three enzymes involved in glycolysis, namely BPGM, GAPDH, and ENO1, in DMEM combine with the supplemental uptake of L-cysteine to increase the cell viability grade and metabolic deviation grade. Moreover, six enzymes involved in cholesterol biosynthesis reduce and fail to reduce viral biomass growth in a culture medium if a cholesterol uptake reaction does not occur and occurs in this medium, respectively.

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Section: Introductionmentioning

confidence: 99%

“…Membership grades for the MDM problem are de ned as follows: . (21) and (22) are obtained by using the one-side linear membership functions expressed in Eq (15)…”

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confidence: 99%

Fuzzy Optimization for Identifying Antiviral Targets for Treating SARS-CoV-2 Infection in the Heart

Chu

Wang

2023

Preprint

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“…Other works have also researched on mental diseases [460] drugs or antidiabetic treatments [461], [462]. Further and more comprehensive lists of works researching in repurposing medicines to treat this SARS-CoV-2 pandemic disease can be found elsewhere [463]- [468].…”

Section: Repurposing Drugs To Treat Covid-19mentioning

confidence: 99%

Creation, integration, and analysis of disease networks towards a better disease understanding and drug repurposing

Prieto Santamaría

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In all publications Pub. I -Pub. III, the author of this thesis was the main responsible for the conceptualization, development, and performance of the analyses, as well as for the writing and publishing of the manuscripts. In papers Pub. II and Pub. III, the co-authors E.U.C. and M.D.U. contributed remarkably to the design and implementation of the final solution. Overall, the coauthors of the published works have greatly contributed to the theoretical discussion and review of the manuscripts, as well as in the technical improvement of the results.The three publications are reproduced in their entirety in the Publications section. They have been chosen as the pivotal elements of the current thesis, even though other publications included in the Appendix A.1 and Appendix A.2 are also of relevance and involved in some of the tasks aimed to be covered in it. A brief description is added at Appendix A.3 on how some of these publications are related to this thesis and their importance to the overall project.

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Drug Repositioning Based on Deep Sparse Autoencoder and Drug–Disease Similarity

Lei,

Chen

et al. 2023

Interdiscip Sci Comput Life Sci

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Recent computational drug repositioning strategies against SARS-CoV-2

Cited by 7 publications

References 92 publications

Fuzzy Optimization for Identifying Antiviral Targets for Treating SARS-CoV-2 Infection in the Heart

Fuzzy Optimization for Identifying Antiviral Targets for Treating SARS-CoV-2 Infection in the Heart

Creation, integration, and analysis of disease networks towards a better disease understanding and drug repurposing

Drug Repositioning Based on Deep Sparse Autoencoder and Drug–Disease Similarity

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