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Molecular Signaling group

Publications

2024

  1. Kandhavelu, J, Subramanian, K, Naidoo, V, Sebastianelli, G, Doan, P, Konda Mani, S et al.. A novel EGFR inhibitor, HNPMI, regulates apoptosis and oncogenesis by modulating BCL-2/BAX and p53 in colon cancer. Br J Pharmacol. 2024;181 (1):107-124. doi: 10.1111/bph.16141. PubMed PMID:37183661
  2. Murugesan, A, Konda Mani, S, Koochakkhani, S, Subramanian, K, Kandhavelu, J, Thiyagarajan, R et al.. Design, synthesis and anticancer evaluation of novel arylhydrazones of active methylene compounds. Int J Biol Macromol. 2024;254 (Pt 3):127909. doi: 10.1016/j.ijbiomac.2023.127909. PubMed PMID:37951450
  3. I Shevkunov, M Kandhavelu, K Egiazarian, A deep learning-based concept for quantitative phase imaging upgrade of bright-field microscope. Appl. Phys. Lett. 2024; 124, 043702. doi.org/10.1063/5.0180986
  4. Murugesan, A, Alshagrawi, RA, Thiyagarajan, R, Kandhavelu, M. A dual fluorescence protein expression system detects cell cycle dependent protein noise. Int J Biol Macromol. 2024;263 (Pt 1):130262. doi: 10.1016/j.ijbiomac.2024.130262. PubMed PMID:38378117 .

2023

  1. Murugesan, A, Konda Mani, S, Thiyagarajan, R, Palanivel, S, Gurbanov, AV, Zubkov, FI et al.. Benzenesulfonamide Analogs: Synthesis, Anti-GBM Activity and Pharmacoprofiling. Int J Mol Sci. 2023;24 (15):. doi: 10.3390/ijms241512276. PubMed PMID:37569654 PubMed Central PMC10418358.
  2. Kandhavelu, J, Subramanian, K, Naidoo, V, Sebastianelli, G, Doan, P, Konda Mani, S et al.. A novel EGFR inhibitor, HNPMI, regulates apoptosis and oncogenesis by modulating BCL-2/BAX and p53 in colon cancer. Br J Pharmacol. 2024;181 (1):107-124. doi: 10.1111/bph.16141. PubMed PMID:37183661 .
  3. Kari, S, Kandhavelu, J, Murugesan, A, Thiyagarajan, R, Kidambi, S, Kandhavelu, M et al.. Mitochondrial complex III bypass complex I to induce ROS in GPR17 signaling activation in GBM. Biomed Pharmacother. 2023;162 :114678. doi: 10.1016/j.biopha.2023.114678. PubMed PMID:37054539 .
  4. Murugesan, A, Kari, S, Shrestha, A, Assoah, B, Saravanan, KM, Murugesan, M et al.. Methanodibenzo[,][1,5]dioxocins as Novel Glutaminase Inhibitor with Anti-Glioblastoma Potential. Cancers (Basel). 2023;15 (4):. doi: 10.3390/cancers15041010. PubMed PMID:36831355 PubMed Central PMC9954004.
  5. Konda Mani, S, Thiyagarajan, R, Yli-Harja, O, Kandhavelu, M, Murugesan, A. Structural analysis of human G-protein-coupled receptor 17 ligand binding sites. J Cell Biochem. 2023;124 (4):533-544. doi: 10.1002/jcb.30388. PubMed PMID:36791278 .
  6. Kari, S, Murugesan, A, Thiyagarajan, R, Kidambi, S, Razzokov, J, Selvaraj, C et al.. Bias-force guided simulations combined with experimental validations towards GPR17 modulators identification. Biomed Pharmacother. 2023;160 :114320. doi: 10.1016/j.biopha.2023.114320. PubMed PMID:36716660 .
  7. Murugesan, M, Kandhavelu, M, Thiyagarajan, R, Natesan, S, Rajendran, P, Murugesan, A et al.. Marine halophyte derived polyphenols inhibit glioma cell growth through mitogen-activated protein kinase signaling pathway. Biomed Pharmacother. 2023;159 :114288. doi: 10.1016/j.biopha.2023.114288. PubMed PMID:36682245 .
  8. Mutharasu, G, Murugesan, A, Kondamani, S, Thiyagarajan, R, Yli-Harja, O, Kandhavelu, M et al.. Signaling landscape of mitochondrial non-coding RNAs. J Biomol Struct Dyn. 2023;41 (21):12016-12025. doi: 10.1080/07391102.2022.2164520. PubMed PMID:36617957 .

2022 – before

Kari S, Subramanian K, Altomonte IG, Murugesan A, Yli-Harja O and Kandhavelu M, Programmed Cell Death Detection Methods: A Systematic Review and a Categorical Comparison, Apoptosis, 27(7-8):482-508, 2022.

Nguyen P, Doan P, Murugesan A, Ramesh T, Rimpilainen T, Candeias N.R, Yli-Harja O, and Kandhavelu M, GPR17 signaling activation by CHBC agonist induced cell death via modulation of MAPK pathway in glioblastoma, Life Science, 10;291:120307, 2022.

Le HTT, Murugesan A, Candeias NR, Ramesh T, Yli-Harja O and Kandhavelu M, P2Y1 agonist, HIC in combination with androgen receptor inhibitor Abiraterone acetate impairs cell growth of prostate cancer, Apoptosis, 27, 283–295, 2022.

Nguyen P, Doan P, Murugesan A, Ramesh T, Rimpilainen T, Candeias N.R, Yli-Harja O, and Kandhavelu M, GPR17 signaling activation by CHBC agonist induced cell death via modulation of MAPK pathway in glioblastoma, Life Science, 10;291:120307, 2022.

Murugesan A, Nguyen P, Ramesh T, Yli-Harja O, Kandhavelu M* and Saravanan KM*, Molecular modelling and dynamics studies of the synthetic small molecule agonists with GPR17 and P2Y1 receptor, JBSD, accepted, Sep 20:1-9,2021, 2021.

Thu Le HT, Murugesan A, Candeias NR, Yli-Harja O and Kandhavelu M. Functional characterization of HIC, a P2Y1 agonist, as a p53 stabilizer for prostate cancer cell death induction. Future Med Chem. 2021 Nov;13(21):1845-1864. doi: 10.4155/fmc-2021-0159. Epub 2021 Sep 10.

Le HTT, Murugesan A, Ramesh T, Yli-Harja O, Saravanan KM and Kandhavelu M. Molecular interaction of HIC, an agonist of P2Y1 receptor, and its role in prostate cancer apoptosis. Int J Biol Macromol. S0141-8130(21)01762-1., 2021.

Nguyen P, Doan P, Rimpilainen T, Konda Mani S, Murugesan A, Yli-Harja O, Candeias NR and Kandhavelu M, Synthesis and preclinical validation of novel indole derivatives as a GPR17 agonist for glioblastoma treatment, ACS Journal of Medicinal Chemistry, 64, 15, 10908–10918, 2021.

Doan P, Nguyen P, Murugesan A, Subramanian K, Konda Mani S, Kalimuthu V, George Abraham B, Stringer B, Balamuthu K, Yli-Harja O and Kandhavelu, M, The orphan G protein–coupled receptor GPR17 is a potential target for glioblastoma, Cancers, 27;13(15):3773, 2021.

Doan P, Nguyen P, Murugesan A, Candeias NR, Yli-Harja O, Kandhavelu, M. Alkylaminophenol and GPR17 Agonist for Glioblastoma Therapy: A Combinational Approach for Enhanced Cell Death Activity. Cells. 10(8):1975, 2021.

Gnanavel, M.; Murugesan, A.; Konda Mani, S.; Yli-Harja, O.; Kandhavelu, M. Identifying the miRNA Signature Association with Aging-Related Senescence in Glioblastoma. Int. J. Mol. Sci. 2021, 22, 517.

Barros MT, Doan P, Kandhavelu, M, Jennings B, and Balasubramaniam S, Engineering Calcium Signaling of Astrocytes for Neural-Molecular Computing Logic Gates, Sci Rep 11, 595 (2021).

Palanivel S, Yli-Harja O, Kandhavelu, M, Molecular interaction study of novel indoline derivatives with EGFR-kinase domain using multiple computational analysis, J Biomol Struct Dyn. 2021 Mar 22:1-10.

Kandhavelu J, Veeriah R, Subramanian K, Rajendran P, Yli-Harja O, Kandhavelu, M*, Murugesan A*, Current status of vaccines, repurposed drugs and alternative biomedicines for the management and prevention of nCOVID-19, Submitted, Journal of Clinical and diagnostic research, accepted, 2021.

Mutharasu G, Murugesan A, Konda Mani S, Yli-Harja O, Kandhavelu, M. Transcriptomic analysis of glioblastoma multiforme providing new insights into GPR17 signaling communication. J Biomol Struct Dyn. 2020 Nov 3:1-14. doi: 10.1080/07391102.2020.1841029

Murugesan, A; Holmstedt, S; Brown, K; Koivuporras, A; Macedo, A; Nguyena, N; Fonte, P; Rijo, P; Yli-Harja , O; Candeias, N; Kandhavelu, M, Design and synthesis of novel quinic acid derivatives: in vitro cytotoxicity and anticancer effect on glioblastoma, Future Medicinal Chemistry, VOL. 12, NO. 21, 2020.

Palanivel, S; Murugesan, A; Subramanian K, Yli-Harja, O and Kandhavelu, M. Antiproliferative and apoptotic effects of indole derivative, N-(2-hydroxy-5-nitrophenyl (4′-methylphenyl) methyl) Indoline in breast cancer cells, EJP, 881: 173195, 2020.

Doan, P.; Musa, A.; Murugesan, A.; Sipilä, V.; Candeias, N.R.; Emmert-Streib, F.; Ruusuvuori, P.; Granberg, K.; Yli-Harja, O.; Kandhavelu, M. Glioblastoma Multiforme Stem Cell Cycle Arrest by Alkylaminophenol Through the Modulation of EGFR and CSC Signaling Pathways. Cells 2020, 9, 681.

Palanivel S, Murugesan A, Yli-Harja O, Kandhavelu, M, “Anticancer activity of THMPP: Downregulation of PI3K/ S6K1 in breast cancer cell line, Saudi Pharmaceutical Journal, 28:4, 495-503 2020.

Palanivel S, Yli-Harja O, Kandhavelu, M. Alkylamino Phenol Derivative Induces Apoptosis by Inhibiting EGFR Signaling Pathway in Breast Cancer Cells. Anticancer Agents Med Chem. 20(7):809-819, 2020

Viswanathan A, Musa A, Murugesan A, Vale J.R., Afonso C.A.M., Saravanan K.M., Yli-Harja O., Candeias N.R. and Kandhavelu, M. Battling Glioblastoma: A novel tyrosine kinase inhibitor with multi-dimensional anti-tumor effect. Cells, 12;8(12). 2019.

Le H., Rimpilainen T., Saravanan K.M., Murugesan, A, Yli-Harja, O., Candeias N.R. and Kandhavelu, M. Synthesis and preclinical validation of novel P2Y1 receptor ligands as a potent anti-prostate cancer agent. Scientific Reports, SREP-19-20949, 2019.

Viswanathan A, Kute D, Musa A, Konda Mani S, Sipilä V, Emmert-Streib F, Zubkov FI, Gurbanov AV, Yli-Harja O, Kandhavelu, M. 2-(2-(2,4-dioxopentan-3-ylidene)hydrazineyl)benzonitrile as novel inhibitor of receptor tyrosine kinase and PI3K/AKT/mTOR signaling pathway in glioblastoma. Eur J Med Chem, 166:291-303, 2019.

Doan, P., Musa, A., Candeias, N. R., Emmert-Streib, F., Yli-Harja, O. P., & Kandhavelu, M. Alkylaminophenol induces G1/S phase cell cycle arrest in glioblastoma cells through p53 and cyclin-dependent kinase signaling pathway. Frontiers in Pharmacology, 10, 330, 2019.

Viswanathan A, Sebastianelli G, Brown KC, Raunio J, Sipilä V, Yli-Harja O, Candeias NR and Kandhavelu, M. In vitro anti-glioblastoma activity of L-valine derived Boroxazolidones, Eur J Pharmacol, 854: 194-200, 2019.

Viswanathan A, Zhurina A, Assoah B, Paakkunainen A, Musa A, Kute D, Saravanan K.M, Candeias N.R. and Kandhavelu, M. Decane-1,2-diol derivatives as potential antitumor agents for the treatment of glioblastoma. Eur J Pharmacol, 837:105-116, 2018.

Musa A, Tripathi S, Kandhavelu, M, Dehmer M, Emmert-Streib F, Harnessing the biological complexity of Big Data from LINCS Gene Expression Signatures, 13(8): e0201937, PLOS one, 2018.

Marucci G, Santinelli C, Buccioni M, Navia AM, Lambertucci C, Zhurina A, Yli-Harja O, Volpini R and Kandhavelu, M, Anticancer activity study of A3 adenosine receptor agonists. Life Sciences. 205, 155-163, 2018.

Konda Mani S, Palanivel S, Yli-Harja O and Kandhavelu, M, Identification of novel GPR17-agonists by structural bioinformatics and signaling activation. Int. J. Biol. Macromol. 106, 901-907, 2018.

Doan P, Anufrieva O, Yli-Harja O, and Kandhavelu, M. In vitro characterization of alkylaminophenols-induced cell death, European Journal of Pharmacology. 820, 229-234, 2018.

Palanivel, S, Chandraseelan JG, Olli Yli-Harja and Kandhavelu, M, Azoderivatives of β-diketones: Screening and Analysis of Anti-Cancer Activity, SJP, 26 (3), 430-436, 2018.

Martins DP, Barros MT, Pierobon M, Kandhavelu, M, Lio P, Balasubramaniam S. Computational Models for Trapping Ebola Virus Using Engineered Bacteria. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 15: 6, 2018.

Doan P, Nguyen T, Yli-Harja O, Candeias N.R, and Kandhavelu, M. Effect of alkylaminophenols on growth inhibition and apoptosis of bone cancer cells. European Journal of Pharmaceutical Sciences, 107, 208-216, 2017.

J. Raunio, J. Mannoja, T. Nguyen, N. Ahmad, N. M. Kuuloja, R. G. Franzen, Kandhavelu, M., and N. R. Candeias. Base catalysed N-functionalisation of boroxazolidones, organic and biomolecular chemistry. RSC Advances, 7, 20620-20627, 2017.

Karjalainen A, Doan P, Chandraseelan JG, Sandberg O, Yli-Harja O, Candeias NR and Kandhavelu, M. Synthesis of Phenol-Derivatives and Biological Screening for Cytotoxic Activity. Anti-Cancer Agents in Medicinal Chemistry, 17, 2017.

Kandhavelu J, Palanivel S and Kandhavelu, M. Aberrantly binding microRNAs and their interactions with nuclear hormone receptors. MicroRNA, 06, 2017.

Anufrieva O, Yli-Harja O and Kandhavelu, M, Quantification of Transcriptional Noise at Single Cell Single Molecule Level, ECMI 13 (2), 45-54, 2017.

Doan P, Karjalainen A, Chandraseelan JG, Sandberg O, Yli-Harja O, Rosholm T, Franzen R, Candeias NR and Kandhavelu, MM, Synthesis and Biological Screening for Cytotoxic Activity of N-Substituted Indolines and Morpholines, EJMEC, 120, 296-303, 2016.

Viswanathan A, Anufrieva O, Sala A, Yli-Harja O and Kandhavelu, M. Phase-dependent dynamics of lac promoter under nutrient stress, Research in Microbiology, 167: 6, 451-461, 2016.

Anufrieva O, Sala A, and Kandhavelu, M. Real-time observation of bacterial gene expression noise, Nano Commination Networks Journal, 8: 68–75, 2016.

Kandhavelu, M. hGPR17 signaling cascade effects mitochondrial function, FEBS Journal, 283(S1):11-56, 2016.

Vaiyapuri P, Ali A, Kandhavelu J, Akbarsha M, Kandhavelu, M, Time lapse microscopy observation of cellular structural changes and image analysis of drug treated cancer cells to characterize the cellular heterogeneity, Env.Toxicology, 1-11, 2015.

Sala A, Shoaib M, Anufrieva O, Mutharasu G, Hoque R.J. Yli-Harja O and Kandhavelu, M. Origins of transcriptional transition: balance between upstream and downstream regulatory gene sequence, Mbio, 6:1, 1-9, 2015.

Viswanathan A, Sala A, Mizar A, Mahmudov K. T. Kopylovich M. N, Ylli Harja O. Pombeiro J. L, and Kandhavelu, M. Azoderivatives of β-diketones: Screening and Analysis of Antimicrobial Activity. EJPS, 66 (2015) 83–89, 2015.

Gnanavel, M, Yli-Harija O and Kandhavelu, M. Protein-protein interaction and coarse grained simulation study of Glioblastoma Multiforme reveals novel pathways of GPR17, TaskQuaterly, 18:4, 321–325, 2015.

Sala A, Shoaib M, Anufrieva O, Mutharasu G, Hoque R.J. Yli-Harja O and Kandhavelu, M. Transcription closed and open complex dynamics studies reveal balance between genetic determinants and co-factors, 12:3, 036003, Physical Biology journal, 2015.

Häkkinen A, Kandhavelu, M, Garasto S and Ribeiro AS, Estimation of fluorescence-tagged RNA numbers from spot intensities, Bioinformatics, 1-8, 2014.

Sala, A, Ribeiro, A S and Kandhavelu, M, Study of the kinetics of transcription as a function of the cell growth phase. FEBS Journal, 280 (S:1) (2013) 3–617.

Mäkelä,J, Kandhavelu, M, Oliveira,M.D.S, Chandraseelan,J, Lloyd-Price,J, Peltonen,J, Yli-Harja,O, Ribeiro, A.S. In vivo single-molecule kinetics of activation and subsequent activity of the arabinose promoter, Nucleic Acids Research, Vol. 4:13, 6544–6552, 2013.

Chandraseelan, J.G, Oliveira M.D.S, Häkkinen,A, Trana, H, Potapov,I, Sala, A, Kandhavelu, M, Ribeiro, A.S, Effects of temperature on the dynamics of the LacI-TetR-CI Repressilator, Molecular Biosystems, 2013, 9, 3117-3123.

Chowdhury S, Kandhavelu, M, Yli-Harja O, and Ribeiro A.S, “Cell Segmentation by Multi-resolution Analysis and Maximum Likelihood Estimation (MAMLE), BMC Bioinformatics, 2013. 14(S:10):S8.

Kandhavelu, M, Lloyd-Price, J, Gupta,A, Muthukrishnan, A-B, Yli-Harja,O and Ribeiro, A.S (2012) Regulation of mean and noise of the in vivo kinetics of transcription under the control of the lac/ara-1 promoter, FEBS Letters 586, 3870-5.

Kandhavelu, J and Kandhavelu, M, Genetic variation may play a crucial role in non-coding RNA biogenesis. (2012). American Journal of Molecular biology, 2, 386-389.

Kandhavelu, M, Paturu L, Mizar A, Mahmudov K.T, Kopylovich M.N, Karp M, Yli-Harja, O, Pombeiro. A.J.L, Ribeiro, A.S. Synthesis, characterization and antimicrobial activity of arylhydrazones of methylene active compounds. (2012). Pharmaceutical chemistry journal. 46, 3:157-164.

Kandhavelu, M. Lloyd-Price, J, Gupta, A. Ribeiro A. S., Probing the in vivo transcription initiation dynamics of unidirectional promoters at the single molecule level. FEBS journal, 279, s1, 2012, 52–576.

Kandhavelu, M and Kandhavelu J. (2012). pre-piRNA biogenesis mimics the pathway of miRNA. Biochemical Systematics and Ecology. 43: 200-2004.

Kandhavelu, M, Häkkinen, A, Yli-Harja, O and Ribeiro AS. (2012) Single Molecule Transcriptional Dynamics of the Lar Promoter. Physical Biology, 9, 026004.

Kandhavelu, M, E. Lihavainen, Muthukrishnan A-B, O. Yli-Harja and A.S. Ribeiro. (2012). Effects of Mg2+ on in vivo transcriptional dynamics of the lar Promoter. Biosystems,1-6.

Muthukrishnan, A-B; Kandhavelu, M; Lloyd-Price, J; Kudasov, F; Chowdhury, S; Yli-Harja, O; Ribeiro, A. (2012) Dynamics of transcription driven by the tetA promoter, one event at a time, in live Escherichia coli cells. Nucleic Acids Research, 40(17), 8472-83.

Chowdhury S, Kandhavelu, M, Yli-Harja O, and Ribeiro A.S, An interacting multiple model filter based autofocus strategy for confocal time-lapse microscopy. (2012). Journal of Microscopy. 245(3), 265-275.

Martins L, Mäkelä J, Häkkinen A, Kandhavelu, M, Yli-Harja O, Fonseca J, Ribeiro, A.S. (2012) Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time. Journal of Theoretical Biology, 301, 83–94.

Lloyd-Price J, Häkkinen A, Kandhavelu, M, Almeida I, Chowdhury S, Lihavainen E, Yli-Harja O, and Ribeiro A.S. (2012). Asymmetric disposal of individual protein aggregates in Escherichia coli, one aggregate at a time, Journal of Bacteriology, 194(7) 1747–1752.

Lloyd-Price J, Lehtivaara M, Kandhavelu, M, Chowdhury S, Muthukrishnan AB, Yli-Harja O, Ribeiro AS. (2012). Probabilistic RNA partitioning generates transient increases in the normalized variance of RNA numbers in synchronized populations of Escherichia coli. Molecular Biosytems. 8(2), 565–571.

Kandhavelu, M, Mannerström H, Gupta A, Häkkinen A, Lloyd-Price J, Yli-Harja O and Ribeiro AS. In vivo kinetics of transcription initiation of the lar promoter in Escherichia coli. Evidence for a sequential mechanism with two rate-limiting steps. (2011). BMC systems Biology. 5:149.

Kandhavelu J, Krishnan N and Kandhavelu, M. (2011). Nonspecific immune responses of Cathranthus roseus in Oreochromis mossambicus. Immunopharmacology and immunotoxicology, 1-7.

Vinoth Kumar Megraj K, Koneri R, Balaraman R, Kandhavelu, M. (2011). Biological Activities of Some Indian medicinal plants, Journal of Advanced Pharmacy Education & Research, 1:12-44.

Mäkelä J, Huttunen H, Kandhavelu, M, Yli-Harja O, Ribeiro AS. (2011) Automatic detection of changes in the dynamics of delayed stochastic gene networks and in vivo production of RNA molecules in Escherichia coli. Bioinformatics, 27: 2714-2720.

Smolander OP, Kandhavelu, M, Mannerström H, Lihavainen E, Kalaichelvan S, Healy S, Yli-Harja O, Karp M, Ribeiro AS. (2011) Cell-to-cell diversity in protein levels of a gene driven by a tetracycline inducible promoter. BMC Mol Biol. 14; 12:21.

Marucci G, Lammi C, Buccioni M, Dal Ben D, Lambertucci C, Amantini C, Santoni G, Kandhavelu, M, Abbracchio MP, Lecca D, Volpini R, Cristalli G. (2011) Comparison and optimization of transient transfection methods at human astrocytoma cell line 1321N1. Analytical Biochem. 15; 414(2):300-2.

Kandhavelu, M, Lammi C, Buccioni M, Dal Ben D, Volpini R, Marucci G. (2009) Existence of snoRNA, microRNA, piRNA characteristics in a novel non-coding RNA: x-ncRNA and its biological implication in Homo sapiens, JBSA, 1(2), 031–040.

Buccioni M, Kandhavelu, M, Angeli P, Cristalli G, Dal ben D, Giardina D, Lambertucci C, Lammi C, Volpini R, Marucci G. (2009) Identification of α1−Adrenoceptor Subtypes Involved in the Rat Epididymal Vas Deferent Contraction, Eur J Pharmacol. 14; 602(2-3):388-94.

Kandhavelu, M and Vennison SJ. (2008) Persistence of plasmid DNA in different soils, African Journal of Biotechnology, 7 (15), 2543-2546.

Marucci G, Finaurini S, Buccioni M, Lammi C, Kandhavelu, M, Volpini R, Ricciutelli M, Angeli P, Commandeur J.N.M and Cristalli G (2008) In vitro metabolism studies of new A2a adenosine receptor antagonists, Journal of Drug metabolism letters, 2, 301-307.