Publications
https://scholar.google.com/citations?user=bJz7GokAAAAJ&hl=en
1. Laxman, Borkotoky, S., Saravanan, V., Murali, A. (2023). The application of MD simulation to lead identification, vaccine design, and structural studies in combat against leishmaniasis - A review. Mini-Reviews in Medicinal Chemistry (ACCEPTED) (IF:3.8)
2. Gaurav, Borkotoky, S., Dubey, V.K., Modi, G.P. (2023). Repurposing the in-house generated Alzheimer’s disease targeting molecules through computational and preliminary in-vitro studies for the management of SARS-Coronavirus-2. Molecular Diversity (ACCEPTED) (IF:3.8)
3. Sharma, M., Borkotoky, S., Dubey, V.K. (2023). Structure-based drug designing against Leishmania donovani using docking and molecular dynamics simulation studies: exploring glutathione synthetase as a drug target. Journal of Biomolecular Structure & Dynamics. doi: https://doi.org/10.1080/07391102.2023.2240429 (IF:4.4)
4. Ilyas, A., Poddar,N.K., Borkotoky, S*.(2023). Insights into the dynamic interactions of RNase A and osmolytes through computational approaches. Journal of Biomolecular Structure & Dynamics. doi: https://doi.org/10.1080/07391102.2023.2229445 (IF:4.4; *corresponding author)
5. Joshi, A., Borkotoky, S., Mehra, A., Kaushik,V.,Sahu,R., Farooq, A. (2023). Chapter 16 - Medical applications of functional antimicrobial nanoparticles," in Antiviral and Antimicrobial Coatings Based on Functionalized Nanomaterials, S. ul Islam, C. M. Hussain, and S. K. Shukla Eds.: Elsevier, 2023, pp. 515-541.doi: https://doi.org/10.1016/B978-0-323-91783-4.00015-2
6. Borkotoky, S*., Dey, D. (2023). Structural investigations of the palmitoylated F13 envelope protein of Mpox virus. Journal of Medical Virology, vol. 95, no. 5, p. e28798. doi: https://doi.org/10.1002/jmv.28798.
(IF: 12.7, *corresponding author)
7. Borkotoky, S., Prakash, A., Modi, G.P., Dubey V.K. (2023). Computational Repurposing of Potential Dimerization Inhibitors against SARS-CoV-2 Main Protease. Letters in Drug Design & Discovery. (IF: 1.0) http://dx.doi.org/10.2174/1570180820666230111141203
8. Joshi, A., Akhtar, N., Sharma, N.R., Kaushik, V., Borkotoky, S* (2023). MERS Virus Spike Protein HTL-Epitopes Selection and Multi-Epitope Vaccine Design Using Computational Biology. Journal of Biomolecular Structure & Dynamics. https://doi.org/10.1080/07391102.2023.2191137 (IF: 4.4, Citations: 6; *corresponding author)
9. Borkotoky, S*., Dey, D., Hazarika (2022). Interactions of angiotensin-converting enzyme-2 (ACE2) and SARS-CoV-2 spike receptor-binding domain (RBD): A structural perspective. Molecular Biology Reports, 50, 2713–2721. https://doi.org/10.1007/s11033-022-08193-4. (IF: 2.8, Citations: 04; *corresponding author)
10. Borkotoky, S*., Dey, D., Hazarika, Z., Joshi, A., & Tripathi, K. (2022). Unraveling viral dynamics through molecular dynamics simulations – A brief overview. Biophysical Chemistry, 291, 106908. https://doi.org/10.1016/j.bpc.2022.106908 (IF: 3.8, Citations: 5; *corresponding author)
11. Borkotoky, S*., Joshi, A., Kaushik, V., & Jha, A. N. (2022). Machine Learning and Artificial Intelligence in Therapeutics and Drug Development Life Cycle. In J. Akhtar, Badruddeen, M. Ahmad, & M. I. Khan (Eds.), Drug Development Life Cycle [Working Title]. IntechOpen. https://doi.org/10.5772/intechopen.104753 (Citations: 21; *corresponding author)
12. Rai, P.K., Joshi, A., Abraham, G., Saxena, R., Borkotoky, S., Yadav, R. K., Pandey, A. K., Tripathi, K. (2022). Cyanobacteria as a Source of Novel Bioactive Compounds. In Cyanobacteria as a Source of Novel Bioactive Compounds. https://doi.org/10.1002/9781119901198.ch6 Scrivener Publishing-Willey, 145-170. (Citations: 10)
13. Saxena, R., Joshi, A., Joshi, S, Borkotoky,S., Singh,K., Rai, P.K., Mueeda, Z. and Sharma, R.(2022). The role of artificial intelligence strategies to mitigate abiotic stress and climate change in crop production. In Visualization Techniques for Climate Change with Machine Learning and Artificial Intelligence. Elsevier, 273-292. https://doi.org/10.1016/B978-0-323-99714-0.00006-6 (Citations: 15)
PUBLICATIONS DURING THE POST-DOCTORAL PERIOD
14. Prakash A#, Borkotoky S#, Dubey VK (2022). Targeting two potential sites of SARS-CoV-2 Main Protease through computational drug repurposing. Journal of Biomolecular Structure & Dynamics. 41:7, 3014-3024. https://doi.org/10.1080/07391102.2022.2044907 (IF: 4.4, Citations: 5) (Equal First author)
15. Borkotoky S, Banerjee M, Modi GP, Dubey VK (2021). Identification of high affinity and low molecular alternatives of boceprevir against SARS-CoV-2 main protease: a virtual screening approach. Chemical Physics Letters. 770, 138446 https://doi.org/10.1016/j.cplett.2021.138446 (IF: 2.8, Citations: 14)
16. Borkotoky S, Dey D, Banerjee M (2021). Computational Insight into the Mechanism of SARS CoV-2 Membrane Fusion. Journal of Chemical Information and Modeling. 61(1):423-431. https://doi.org/10.1021/acs.jcim.0c01231 (IF: 5.6, Citations: 15)
17. Borkotoky S and Banerjee M (2020). A computational prediction of SARS-CoV-2 structural protein inhibitors from Azadirachta indica (Neem). Journal of Biomolecular Structure & Dynamics.39:11, 4111-4121. https://doi.org/10.1080/07391102.2020.1774419 (IF: 4.4, Citations: 114)
18. Dey D, Borkotoky S, Banerjee M (2020). In silico identification of Tretinoin as a SARS-CoV-2 envelope (E) protein ion channel inhibitor. Computers in Biology and Medicine, 127, 104063. https://doi.org/10.1016/j.compbiomed.2020.104063 (IF: 7.7, Citations: 49)
19. Nair P, Dey D, Borkotoky S, Shukla A, Banerjee M (2019). Hydrophobicity and oligomerization are essential parameters for membrane penetration activity of the VP4 peptide from the Hepatitis A Virus (HAV). Archives of Biochemistry and Biophysics,678, 108188 https://doi.org/10.1016/j.abb.2019.108188 (IF: 3.9, Citations: 5)
PUBLICATIONS DURING Ph.D.
20. Borkotoky S, Murali A (2018). The highly efficient T7 RNA polymerase: A wonder macromolecule in biological realm. International Journal of Biological Macromolecules, 118, 49–56 https://doi.org/10.1016/j.ijbiomac.2018.05.198 (IF: 8.2, Citations : 45)
21. Borkotoky S, Meena CK, Bhalerao GM, and Murali A (2017). An in-silico glimpse into the pH dependent structural changes of T7 RNA polymerase: a protein with simplicity. Scientific Reports 7, 6290. https://doi.org/10.1038/s41598-017-06586-1 (IF: 4.6, Citations : 13)
22. Borkotoky S, Murali A (2017). A computational assessment of pH-dependent differential interaction of T7 lysozyme with T7 RNA polymerase. BMC Structural Biology 17(1):7. https://doi.org/10.1186/s12900-017-0077-9 (IF: 1.231, Citations : 27)
23. Borkotoky S, Meena CK and Murali A (2016). Interaction analysis of T7 RNA polymerase with heparin and its low molecular weight derivatives- an in silico approach. Bioinform Biol Insights,10,155–166. https://doi.org/10.4137/BBI.S40427 (IF: 5.8 , Citations : 31)
24. Borkotoky S, Meena CK, Soman A, Murali A (2015). Insight into the LGP2 Helicase Domain – An in silico Approach. https://doi.org/10.13189/ijbb.2015.030202 International Journal of Biochemistry and Biophysics, 3, 13 - 23.
25. Borkotoky S, Meena CK, Khan MW, Murali A (2013). Three dimensional electron microscopy and in silico tools for macromolecular structure determination. EXCLI Journal;12,335-346. https://www.excli.de/index.php/excli/article/view/1152 (IF: 4.6, Citations: 5 )
26. Borkotoky S*, Saravanan V, Jaiswal A, Das B, Selvaraj S, Murali A, and Lakshmi PTV (2013) The Arabidopsis stress responsive gene database, International journal of plant genomics, vol. 2013. 949564 https://doi.org/10.1155/2013/949564 (Scopus indexed, Citations: 45). (*corresponding author)
PUBLICATIONS IN COLLABORATION
27. Rajkumari J, Borkotoky S, Reddy D, Mohanty SK, Kumavath R, Murali A, Suchiang K, Busi S (2019). Anti-quorum sensing and anti-biofilm activity of 5-Hydroxymethylfurfural against Pseudomonas aeruginosa PAO1: insights from in vitro, in vivo and in silico studies. Microbiological Research, 226,19-26 https://doi.org/10.1016/j.micres.2019.05.001 (IF: 6.7, Citations : 39)
28. Alam P, Borkotoky S, Siddiqi Md K, Ehtram A, Majid N, Uddin M, and Khan RH (2018). DARK Classics in Chemical Neuroscience: Opium, a Friend or Foe. ACS Chemical Neuroscience, 10,182-189 https://doi.org/10.1021/acschemneuro.8b00546 (IF: 5, Citations :07)
29. Rajkumari J, Borkotoky S, Murali A, Busi S (2018). Anti-quorum sensing activity of Syzygium jambos (L.) Alston against Pseudomonas aeruginosa PAO1 and identification of its bioactive components. South African Journal of Botany, 118, 151-157 https://doi.org/10.1016/j.sajb.2018.07.004 (IF: 3.1, Citations :20)
30. Rajkumari J, Borkotoky S, Murali A, Suchiang K, Mohanty SK, Busi S (2018). Cinnamic acid attenuates quorum sensing associated virulence factors and biofilm formation in Pseudomonas aeruginosa PAO1. Biotechnology Letters, 40: 1087-1100 https://doi.org/10.1007/s10529-018-2557-9 (IF: 2.7, Citations: 53)
31. Rajkumari J, Borkotoky S, Murali A, Suchiang K, Mohanty SK, Busi S (2018). Attenuation of quorum sensing controlled virulence factors and biofilm formation in Pseudomonas aeruginosa by pentacyclic triterpenes, betulin and betulinic acid. Microbial pathogenesis 118, 48-60. https://doi.org/10.1016/j.micpath.2018.03.012 (IF: 3.8, Citations: 72)
32. Meena CK, Borkotoky S, and Murali A (2016). Insight into virus encapsulation mechanism through in silico interaction study between coat protein and RNA operator loops of Sesbania mosaic virus. Molecular Omics (earlier known as Molecular Biosystems), 12, 1996-2009. https://doi.org/10.1039/C6MB00206D (IF: 2.9, Citations : 1)
33. Singh V, Borkotoky S, Murali A., Rao JL, Rao TG, & Dhoble SJ (2015). Electron paramagnetic resonance and photoluminescence investigation on ultraviolet-emitting gadolinium-ion-doped CaAl 12 O 19 phosphors. Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy, 139, 1-6. https://doi.org/10.1016/j.saa.2014.11.097 (IF: 4.4, Citations : 38)