Sivapriya Kirubakaran - Cancer Chemical Biology Lab

Indian Institute of Technology Gandhinagar

Publications

2024

  1. Sirakanyan, Samvel N., Haritha Dilip, Athina Geronikaki, Domenico Spinelli, Sivapriya Kirubakaran, Anthi Petrou, Elmira K. Hakobyan et al. “In silico Design, Synthesis and Biological Evaluation of Novel Thieno [3, 2‐d] pyrimidine Derivatives for Cancer Therapy–A Preliminary Study on the Inhibitory Potential towards ATR Kinase Domain and PIKK Family. “Chemistry & Biodiversity, 2024, 21, 3, e202302071. https://doi.org/10.1002/cbdv.202302071 
  2. Bhanu Priya, Delna Johnson, Gurudutt Dubey, Divita Suthar, Indracanti Prem Kumar, Vijay Thiruvenkatam, and Sivapriya Kirubakaran. “Temozolomide cocrystal forms with enhanced dissolution, stability and biological activity towards Glioblastoma.” J. Mol. Struct. 2024, 1313, 138751. https://doi.org/10.1016/j.molstruc.2024.138751 
  3. Dilip, Haritha, Dr. Vijay Thiruvenkatam, and Dr. Sivapriya Kirubakaran. “Studies on Methylpyrazole-Substituted Benzimidazoles to Target Helicobacter pylori Infection through Hp IMPDH Inhibition.” ACS Infect. Dis. 2024. https://doi.org/10.1021/acsinfecdis.4c00228
  4. Parwani, K.; Patel, F.; Bhagwat, P.; Dilip, H.; Patel, D.; Thiruvenkatam, V.; Mandal,  P., Swertiamarin mitigates nephropathy in high-fat diet/streptozotocin-induced diabetic rats by inhibiting the formation of advanced glycation end products. Archives of Physiology and Biochemistry, 2024, 130 (2), 136–54. DOI: 10.1080/13813455.2021.1987478
  5. Priya, B.; Chhabria, D.; Dhongdi, J. M.; Kirubakaran, S. A novel approach to investigate the combinatorial effects of TLK1 (Tousled-like kinase 1) inhibitors for Glioblastoma Therapy. Bioorg. Chem. 2024, 151, 107643. https://doi.org/10.1016/j.bioorg.2024.107643 

 

2023

  1. Priya, Bhanu; Dubey, Gurudutt; Kirubakaran, Sivapriya. Exploring SPK98 for the Selective Sensitization of ATM – or – P53 – Deficient Cancer Cells. ACS Omega 2023, 8, 4954-4962. https://pubs.acs.org/doi/10.1021/acsomega.2c07356 
  2. Johnson, Delna; Hussain, Javeena; Bhoir, Siddhant; Chandrasekharan, Vaishali; Sahrawat, Parul; Hans, Tanya; Khalil, Imtiaz; De Benedetti, Arrigo; Thiruvenkatam, Vijay; Kirubakaran, Sivapriya. Synthesis, kinetics, and cellular studies of new phenothiazine analogs as potent human-TLK inhibitors. Biomol. Chem. 2023, 21, 1980-1991. https://doi.org/10.1039/d2ob02191a
  3. Shaik, Althaf; Bhagwat, Pranav; Palanisamy, Parimaladevi; Chhabria, Dimple; Dubey, Pankaj; Kirubakaran, Sivapriya; Thiruvenkatam, Vijay. “Novel pharmaceutical Co- crystals of Gefitinib: Synthesis, Dissolution, Cytotoxicity, and Theoretical Studies.” CrystEnggComm 2023, 25, 2570-2581. https://doi.org/10.1039/D3CE00056G 
  4. Priya, Bhanu; Ravi, Srimadhavi; Kirubakaran, Sivapriya. Targeting ATM and ATR for Cancer Therapeutics. Drug Discovery Today 2023, 28, 8, 103662. https://doi.org/10.1016/j.drudis.2023.103662 
  5. Geronikaki, Athina, Gurudutt Dubey, Anthi Petrou, and Sivapriya Kirubakaran. “Computer-aided drug design: an overview.” Cheminformatics, QSAR and Machine Learning Applications for Novel Drug Development, 2023, 39-68. https://doi.org/10.1016/B978-0-443-18638-7.00024-4
  6. Delna Johnson, Sivapriya Kirubakaran, Vijay Thiruvenkatam; Abstract C154: Investigation of indole-based molecules as a new class of TLK1 inhibitors in prostate cancer therapy. Mol Cancer Ther, 1 December 2023; 22 (12_Supplement): C154. https://doi.org/10.1158/1535-7163.TARG-23-C154
  7. Kumari, Amita, Pranav Umesh Bhagwat, Dimple Chhabria, Sivapriya Kirubakaran, and Sushil K. Maurya. “Comparative Study of Secondary Metabolites of Camellia sinensis and Camellia japonica Flowers Growing in the Kangra Region of India and Their Cytotoxicity Evaluation.” ACS Food Sci. Technol. 2023,  3, 9, 1484-1495. https://doi.org/10.1021/acsfoodscitech.3c00180  

 2022

1. Hussain, Javeena; Sahrawat, Parul; Dubey, Pankaj; Kirubakaran, Sivapriya and Thiruvenkatam, Vijay, “Exploring packing features of N-substituted acridone derivatives: synthesis and X-ray crystallography studies.” Journal of Molecular Structure, vol. 1248, Jan. 2022. DOI: 10.1016/j.molstruc.2021.131448, .

2. Johnson, Delna; Hussain, Javeena; Bhoir, Siddhant; Sahsrawat, Parul; Hans, Tanya; Vaishali, C.; Thiruvenkatam, Vijay and Kirubakaran, Sivapriya, “Evaluating the therapeutic viability of bacterially expressed human TLK1B-kinase domain for cancer drug design”, Research Square, Research Square Company, Feb. 2022. DOI: 10.21203/rs.3.rs-1314176/v1.

3. Bajpai, Aman; Deepshikha; Chhabria, Dimple; Mishra, Tripti; Kirubakaran, Sivapriya and Basu, Sudipta. “Small molecules NSAID derivatives for impairing powerhouse in cancer cells,” Bioorganic and Medicinal Chemistry, vol.64, June 2022. https://doi.org/10.1016/j.bmc.2022.116759 

4. Mikhaylo Frasinyuk, Chhabria, Dimple, Victor Kartsev, Dilip, Haritha, Samvel Sirakanyan,  Kirubakaran, Sivapriya, Athina Geronikaki, Domenico Spinelli D, “Benzothiazole and Chromone derivatives as potential ATR kinase inhibitors and anticancer agents.” Molecules 2022, 27, 4637. https://doi.org/10.3390/molecules2714463

5. Shinde, Sopan; Chhabria, Dimple; Ingle, Jaypalsing, Kirubakaran, Sivapriya, and Basu, Sudipta, “Small molecule induces mitochondria impairment in colon cancer cells.” New J. Chem. 2022, 46, 22117-22121. https://doi.org/10.1039/D2NJ03242B 

 

2021

  1. Kirubakaran, Sivapriya; Sureshkumar, Devarajulu and Chandrasekaran, Srinivasan, “Tetrathiomolybdate and tetraselenotungstate as sulfur/selenium transfer reagents: applications in the synthesis of new thio/seleno sugars”, The Chemical Record, DOI: 10.1002/tcr.202100097, Jun. 2021.
  2. Ravi, Srimadhavi; Priya, Bhanu; Dubey, Pankaj; Thiruvenkatam, Vijay and Kirubakaran, Sivapriya, “Molecular docking and molecular dynamics simulation studies of quinoline-3-carboxamide derivatives with DDR kinases–selectivity studies towards ATM kinase”, Chemistry, DOI: 10.3390/chemistry3020036, vol. 3, no. 2, pp. 511-524, Apr. 2021.
  3. Bhoir, Siddhant; Hussain, Javeena and Kirubakaran, Sivapriya, “Tousled like kinase as a new drug target towards prostate cancer therapy”, in the 58thAnnual Convention of Chemists (ACC) of the Indian Chemical Society (ICS): International Conference on Recent Trands in Chemical Sciences Organic & Bio-Chemistry(RTCS-OBC 2021), Kolkata, IN, Dec. 22-24, 2021.
  4. Dilip, Haritha; Thiruvenkatam, Vijay and Kirubakaran, Sivapriya, “Elucidation of the structural and functional role of key amino acids in helicobacter pylori IMPDH through point mutations”, in the 27th CRSI National Symposium in Chemistry, Kolkata, IN, Sep. 27-30, 2021.
  5. George, Johnson Delna J. K.; Thiruvenkatam, Vijay and Kirubakaran, Sivapriya, “TLK1B: a new kinase to target for prostate cancer therapy”, in the 27th CRSI National Symposium in Chemistry, Kolkata, IN, Sep. 27-30, 2021.
  6. Priya, Bhanu and Kirubakaran, Sivapriya, “Employing SPK98 for selective sensitization of ATM or P53 deficient cancer cell”, in the 27th CRSI National Symposium in Chemistry, Kolkata, IN, Sep. 27-30, 2021.

2020

  1. Bhakuni, Rashmi; Shaik, Althaf; Priya, Bhanu and Kirubakaran, Sivapriya, “Characterization of SPK 98, a Torin2 analog, as ATR and mTOR dual kinase inhibitor”, Bioorganic & Medicinal Chemistry Letters, DOI: 10.1016/j.bmcl.2020.127517, vol. 30, no. 23, Sep. 2020.
  2. Hussain, Javeena; Angira, Deekshi; Hans, Tanya; Dubey, Pankaj; Kirubakaran, Sivapriya and Thiruvenkatam, Vijay, “Synthesis and characterization of a new class of phenothiazine molecules with 10H-substituted morpholine & piperidine derivatives: a structural insight”, Journal of Molecular Structure, DOI: 10.1016/j.molstruc.2020.128546, vol. 1219, Jun. 2020.
  3. Hussain, Javeena; Chhabria, Dimple and Kirubakaran, Sivapriya, “Design, synthesis and biological evaluation of new Myo-inositol derivatives as potential RAS inhibitors”, Bioorganic & Medicinal Chemistry Letters, DOI: 10.1016/j.bmcl.2020.127290, vol. 30, no. 16, Aug. 2020.
  4. Hussain, Javeena; Kirubakaran, Sivapriya and Ravi, Srimadhavi, “The endeavours in RAS inhibition the past, present, and future”, Current Topics in Medicinal Chemistry, DOI: 10.2174/1568026620666200903163044, vol. 20, no. 29, pp. 2708-2722, Sep. 2020.
  5. Ravi, Srimadhavi; Barui, Sugata; Kirubakaran, Sivapriya; Duhan, Parul and Bhowmik, Kaushik, “Synthesis and characterization of quinoline-3-carboxamide derivatives as inhibitors of the ATM kinase”, Current Topics in Medicinal Chemistry, DOI: 10.2174/1568026620666200731174216, vol. 20, no. 23, pp. 2070-2079, Jul. 2020.
  6. Shaik, Althaf and Kirubakaran, Sivapriya, “Evolution of PIKK family kinase inhibitors: a new age cancer therapeutics”, Frontiers in Bioscience, Landmark Edition, DOI: 10.2741/4866, vol. 25, no. 8, pp. 1510-1537, Mar. 2020.
  7. Singh, Neeru; Bhakuni, Rashmi; Chhabria, Dimple and Kirubakaran, Sivapriya, “MDC1 depletion promotes cisplatin induced cell death in cervical cancer cells”, BMC Research Notes, DOI: 10.1186/s13104-020-04996-5, vol. 13, no. 1, Mar. 2020.
  8. Singh, Vibha #; Bhoir, Siddhant #; Chikhale, Rupesh V. $; Hussain, Javeena $; Dwyer, Donard; Bryce, Richard A. *; Kirubakaran, Sivapriya * and De Benedetti, Arrigo *, “Generation of phenothiazine with potent anti-TLK1 activity for prostate cancer therapy”, iScience, DOI: 10.1016/j.isci.2020.101474, vol. 23, no. 9, Aug. 2020. (*corresponding authors # equal contribution $ equal contribution).
  9. Shaik, Althaf; Natarajan, Nalini; Kirubakaran, Sivapriya and Thiruvenkatam, Vijay, “Virtual screening of FDA approved drugs against Nsp15 endoribonuclease from SARS CoV-2”, ChemRxiv.org, DOI: 10.26434/chemrxiv.13265519.v1 , Nov. 2020.
  10. Srimadhavi, Ravi; Priya, Bhanu and Sivapriya, Kirubakaran, “Design and characterization of Quinoline-3-Carboxamides as selective inhibitors of ATM kinase for cancer therapeutics”, in the 57th Annual Convention of Chemists & International Conference on Recent Trends in Chemical Sciences (RTCS 2020), Indian Chemical Society (ICS), Kolkata, IN, Dec. 26-29, 2020. (Best Presentation Award).
  11. Bhoir, Siddhant; Singh, Vibha; Chikhale, Rupesh; Hussain, Javeena; Bryce, Richard; De Benedetti, Arrigo and Kirubakaran, Sivapriya, “Targeting prostate cancer: the tousled way”, in the 2020 Meeting of DNA Damage, Mutation and Cancer Gordon Research Conference, Ventura, US, Mar. 1-6, 2020.
  12. Rimjhim; Shaik, Althaf and Kirubakaran, Sivapriya, “Development of inosine-5-monophosphate dehydrogenase (IMPDH) inhibitors against helicobacter pylori infection”, in the 26th Indian Society for Chemists and Biologists Conference (ISCBC)-Nirma Institute of Pharmacy International Conference (NIPiCON) 2020, Nirma University, Ahmedabad, IN, Jan. 22-24, 2020.
  13. Sahrawat, Parul; Hussain, Javeena; C. Vaishali and Kirubakaran, Sivapriya, “Design, synthesis and biological studies of small molecule inhibitors targeting Tousled-like kinase(TLK1/1B) as anti-cancer agent”, in the 26th Indian Society for Chemists and Biologists Conference (ISCBC)-Nirma Institute of Pharmacy International Conference (NIPiCON) 2020, Nirma University, Ahmedabad, IN, Jan. 22-24, 2020.
2019

  1. Bhoir, S.; Hussain, J.; Singh, V.; Chikhale, R.; Bryce, R.; Kirubakaran, S.; DeBenedetti, A., Abstract 1264: Design, synthesis and biological evaluation of new phenothiazine derivatives as potential Tousled-like kinase 1 inhibitors in prostate cancer treatment. Cancer research 2019, 79 (13 Supplement), 1264.
  2. Jangra, S.; Purushothaman, G.; Juvale, K.; Ravi, S.; Menon, A.; Thiruvenkatam, V.; Kirubakaran, S., Synthesis and In Vitro Enzymatic Studies of New 3-Aryldiazenyl Indoles as Promising Helicobacter pylori IMPDH Inhibitors. Current Topics in Medicinal Chemistry 2019, 19 (5), 376-382.
  3. Juvale, K.; Purushothaman, G.; Singh, V.; Shaik, A.; Ravi, S.; Thiruvenkatam, V.; Kirubakaran, S., Identification of selective inhibitors of Helicobacter pylori IMPDH as a targeted therapy for the infection. Scientific Reports 2019, 9 (1), 190.
  4. P. Shah, C.; Purushothaman, G.; Thiruvenkatam, V.; Kirubakaran, S.; Juvale, K.; Kharkar, P., Design, synthesis and biological evaluation of Helicobacter pylori inosine 5′-monophosphate dehydrogenase (HpIMPDH) inhibitors. Further optimization of selectivity towards HpIMPDH over human IMPDH2. Bioorganic Chemistry 2019, 87.
  5. Althaf, S.; Harshit, K. A.; Rashmi, B.; Sivapriya, K., Novel Pyrazolo[4, 3-c]Quinolin-3-One Derivatives as PDE5A Inhibitors. Current Topics in Medicinal Chemistry 2019, 19 (4), 305-315.
  6. Juvale, K.*; Shaik, A. *; Kirubakaran, S., Inhibitors of inosine 5′-monophosphate dehydrogenase as emerging new generation antimicrobial agents. MedChemComm 2019, 10 (8), 1290-1301.( * Equal  authors)

 

2018

  1. Bhakuni, R.; Shaik, A.; Kirubakaran, S., Evaluation of MBP tagged-hATR kinase domain catalytic activity with p53 Ser-15 phosphorylation. Biochemistry, 2018,  57, 47, 6592-6603.
  2. Shaik, A.; Bhakuni, R.; Kirubakaran, S., Design, Synthesis, and Docking Studies of New Torin2 Analogs as Potential ATR/mTOR Kinase Inhibitors. Molecules 2018, 23 (5), 992.
  3. Bhoir, S.; Shaik, A.; Thiruvenkatam, V. *; Kirubakaran, S. *, High yield bacterial expression, purification and characterization of bioactive Human Tousled-like Kinase 1B involved in cancer. Scientific Reports 2018, 8 (1), 4796. ( * Equal Corresponding authors).
  4. Singh, N.; Bhakuni, R.; Kirubakaran, S., Abstract 772: High MDC1 expression in cervical cancer cells can affect the chemo- and radiotherapeutic response as its depletion leads to increased cell death. Cancer Research 2018, 78 (13 Supplement), 772.
2017

  1. Palanisamy, P.; Shaik, A.; Kirubakaran, S.; Thiruvenkatam, V., Effect of co-crystallization on physico-chemical properties of gefitinib. Acta Crystallographica Section A 2017, 73 (a2), C725.
  2. Shaik, A.; Kirubakaran, S.; Thiruvenkatam, V., Crystal structure and Hirshfeld surface analysis of ethyl 5-phenylisoxazole-3-carboxylate. Acta Crystallographica Section E 2017, 73 (4), 531-534.
  3. Kirubakaran, S.; Thiruvenkatam, V. T.; Shaik, A., Abstract 3235: Development of potent and selective inhibitors for ATR: An adjuvant for DNA damage based chemotherapeutics. Cancer Research 2017, 77 (13 Supplement), 3235-3235.
  4. Purushothaman, G.*; Juvale, K.*; Kirubakaran, S.; Vemula, P. K.; Thiruvenkatam, V., Water-mediated intermolecular interactions in 1,2-O-cyclohexylidene-myo-inositol: a quantitative analysis. Acta crystallographica. Section C, Structural chemistry 2017, 73 (Pt 1), 20-27 ( * Equal first authors)
2013-2010

  1. Liu, Q.; Xu, C.; Kirubakaran, S.; Zhang, X.; Hur, W.; Liu, Y.; Kwiatkowski, N. P.; Wang, J.; Westover, K. D.; Gao, P.; Ercan, D.; Niepel, M.; Thoreen, C. C.; Kang, S. A.; Patricelli, M. P.; Wang, Y.; Tupper, T.; Altabef, A.; Kawamura, H.; Held, K. D.; Chou, D. M.; Elledge, S. J.; Janne, P. A.; Wong, K. K.; Sabatini, D. M.; Gray, N. S., Characterization of Torin2, an ATP-competitive inhibitor of mTOR, ATM, and ATR. Cancer Res 2013, 73 (8), 2574-86.
  2. Liu, Q.; Kirubakaran, S.; Hur, W.; Niepel, M.; Westover, K.; Thoreen, C. C.; Wang, J.; Ni, J.; Patricelli, M. P.; Vogel, K.; Riddle, S.; Waller, D. L.; Traynor, R.; Sanda, T.; Zhao, Z.; Kang, S. A.; Zhao, J.; Look, A. T.; Sorger, P. K.; Sabatini, D. M.; Gray, N. S., Kinome-wide selectivity profiling of ATP-competitive mammalian target of rapamycin (mTOR) inhibitors and characterization of their binding kinetics. The Journal of biological chemistry 2012, 287 (13), 9742-52.
  3. Kirubakaran, S.; Gorla, S. K.; Sharling, L.; Zhang, M.; Liu, X.; Ray, S. S.; Macpherson, I. S.; Striepen, B.; Hedstrom, L.; Cuny, G. D., Structure-activity relationship study of selective benzimidazole-based inhibitors of Cryptosporidium parvum IMPDH. Bioorg Med Chem Lett 2012, 22 (5), 1985-8.
  4. Macpherson, I. S.; Kirubakaran, S.; Gorla, S. K.; Riera, T. V.; D’Aquino, J. A.; Zhang, M.; Cuny, G. D.; Hedstrom, L., The structural basis of Cryptosporidium-specific IMP dehydrogenase inhibitor selectivity. Journal of the American Chemical Society 2010, 132 (4), 1230-1.
2009-2006

  1. Maurya, S. K.; Gollapalli, D. R.; Kirubakaran, S.; Zhang, M.; Johnson, C. R.; Benjamin, N. N.; Hedstrom, L.; Cuny, G. D., Triazole inhibitors of Cryptosporidium parvum inosine 5′-monophosphate dehydrogenase. Journal of medicinal chemistry 2009, 52 (15), 4623-4630.
  2. Sivapriya, K.; Suguna, P.; Chandrasekaran, S., Novel cyclic tetraselenides of mannose: synthesis and mechanistic studies. Tetrahedron Letters 2007, 48 (12), 2091-2095.
  3. Sivapriya, K.; Suguna, P.; Shubashree, S.; Sridhar, P. R.; Chandrasekaran, S., Novel chalcogenides of thymidine and uridine: synthesis, properties and applications. Carbohydrate research 2007, 342 (9), 1151-8.
  4. Sivapriya, K.; Hariharaputran, S.; Suhas, V. L.; Chandra, N.; Chandrasekaran, S., Conformationally locked thiosugars as potent alpha-mannosidase inhibitors: synthesis, biochemical and docking studies. Bioorganic & medicinal chemistry 2007, 15 (17), 5659-65.
  5. Sivapriya, K.; Suguna, P.; Banerjee, A.; Saravanan, V.; Rao, D. N.; Chandrasekaran, S., Facile one-pot synthesis of thio and selenourea derivatives: a new class of potent urease inhibitors. Bioorg Med Chem Lett 2007, 17 (22), 6387-91.
  6. Mitra, A.; Sivapriya, K.; Kumar, A., Experimental implementation of a three qubit quantum game with corrupt source using nuclear magnetic resonance quantum information processor. Journal of magnetic resonance (San Diego, Calif. : 1997) 2007, 187 (2), 306-13.
  7. Sivapriya, K.; Chandrasekaran, S., New conformationally locked thioderivatives of mannose: synthesis, applications, and mechanistic studies. Carbohydrate research 2006, 341 (13), 2204-10.
  8. Chockalingam, E.; Sivapriya, K.; Subramanian, S.; Chandrasekaran, S., Rice husk filtrate as a nutrient medium for the growth of Desulfotomaculum nigrificans: characterisation and sulfate reduction studies. Bioresource technology 2005, 96 (17), 1880-8.
  9. Sivapriya, K.; Chandrasekaran, S., Metathesis: A “Change-Your-Partners” dance. Resonance 2006, 11 (4), 26-32 (Invited Article)

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