Prabodhika Mallikaratchy

Assistant Professor, Analytical Chemistry
Phone: 347-577-4082
Office: New Science Hall-Office S-4404

Degrees and Training:

  • Grad. I. Chem C., Institute of Chemistry, Sri Lanka.
  • M.S. University of Louisiana at Monroe.
  • Ph.D. University of Florida.
  • Postdoctoral fellow, Memorial Sloan Kettering Cancer Center.

Research synopsis

Prabodhika MallikaratchyLong-term goal of this laboratory is to develop oligonucleotide aptamer based synthetic antibodies for biological and biomedical applications. Therefore, this research program is aimed at generating new aptamers against biologically important cellular targets, and molecular engineering of multifunctional aptamer structures suitable for drug delivery.

Nucleic acid aptamers (nucleic acid based antibody analogues) are short DNA/RNA sequences, which specifically bind to a target molecule with high affinity and/or specificity. The method of selecting aptamers is called systematic evolution of ligands by exponential enrichment (SELEX).

Our laboratory is focused on two major areas of aptamer research:

  • Investigation of novel SELEX technologies to select aptamers against biologically important cellular targets.
  • Design and synthesis of novel multivalent, multifunctional aptamer scaffolds for biomedical applications. We are also interested in structure-activity relationship studies of monomeric and multimeric aptamers.


  • Prabodhika R. Mallikaratchy, Jeffrey R. Gardner, Lars Ulrik R. Nordstrøm, Nickolas J. Veomett, Michael R. McDevitt, Mark L. Heaney and David A. Scheinberg. “A self-assembling short oligonucleotide duplex for use in vivo” submitted (2012)
  • Prabodhika R. Mallikaratchy, Alessandro Ruggiero, Jeffrey R. Gardner, Vitaly Kuryavyi, William F. Maguire, Mark L. Heaney, Michael R. McDevitt, Dinshaw J. Patel and David A. Scheinberg.  “A multivalent DNA aptamer specific for the B cell receptor on human lymphoma and leukemia” Nucleic Acids Res. . 2011; 39(6): 2458
  • Tang Z., Zhu Z., Mallikaratchy P., Yang R., Sefah K., Tan W. “Aptamer-target binding triggered molecular mediation of singlet oxygen generation” Chem. Asian J. 2010; 5 (4): 783.
  • Mallikaratchy P., Liu H., Huang Y.-F., Wang H., Lopez-Colon D. and Tan W. “Using aptamers evolved from cell-SELEX to engineer a drug delivery platform” Chem. Commun. 2009; 7 (21): 3056.
  • Mallikaratchy P. and Tang Z., Tan W. “Aptamers evolved from whole cell selection as a selective anti-tumor photodynamic agent” ChemMedChem. 2008; 3 (3): 425.
  • Tang Z., Mallikaratchy P., Yang R., Kim Y., Zhu Z., Wang H. and Tan W. "Aptamer switch probe based on intramolecular displacement" J. Am. Chem. Soc. 2008; 130 (34): 11268.
  • Shangguan D., Meng L., Mallikaratchy P., Li Y. and Tan, W.  “Cell-specific aptamer probes directing cancer biomarker discovery in cancer cells” J. Proteomic Res. 2008; 7 (5): 2133.
  • Mallikaratchy P., Tang Z., Kwame S., Meng L., Shangguan D., and Tan W. “Aptamer directly evolved from live cells recognize membrane bound immunoglobin heavy mu chain on Burkitt’s lymphoma cells” Mol. Cell. Proteomics. 2007; 6 (12): 2230.
  • Mallikaratchy P., Chen H., Tang Z., Meng L., Shangguan D., Parekh P., Kim Y., Sefah, K., and Tan W. “DNA aptamers for molecular imaging and profiling of cancer”, American Pharm. Rev. 2007; 10 (6): 134.
  • Tang Z., Shangguan D., Wang K., Kwame S., Mallikaratchy P., Li, Y., and Tan, W. “Selection of aptamers for molecular recognition and characterization of cancer cells” Anal. Chem. 2007; 79 (13): 4900.
  • Shangguan, D., Tang, Z., Mallikaratchy P., Xiao Z., Tan W. “Optimizations and modifications of aptamers selected from live cancer cells” ChemBioChem. 2007; 8 (6): 603.
  • Shangguan D., Li Y., Tang Z., Cao Z., Chen H., Mallikaratchy P., Kwame S., Yang C. J., and Tan W. “Aptamers evolved from live cells as effective molecular probes for cancer study” Proc. of Natl. Acad. of Sci USA. 2006; 103: 11838.
  • Mallikaratchy P., Stahelin R., Cao Z., Cho W., and Tan W. “Combinatorial selection and binding of high affinity DNA ligands targeting protein kinase C‑delta” Chem. Comm. 2006; 30: 3229.
  •  Mallikarachy P., Fronczek F. R., Brotherton H. O., and Junk T. “Facile Access to novel organotellurium heterocycles by nitration of Bis- (3, 5-Dimethylphenyl) Ditelluride” J. Het. Chem. 2005; 42 (2): 243.
  • Mallikaratchy P., Norman R. E., Fronczek F. R., and Junk T. “Diazenediyldiphenyl-2C2', N1)-bis [(3,5-dimethyl-phenyl) tellurium(II)]” Acta. Crystallographica. 2005; E61 (7): m1370.
  • Mallikaratchy P., Norman R. E., Fronczek F. R., and Junk T. “Tribromo(3,5-dimethyl-2-nitrophenyl-κ2C1,O)tellurium(IV),-bromo(3,5-dimethyl-2-nitrophenyl-κ2C1,O)-tellurium-(II) and bromo(3,5-dimethyl-nitroso-phenyl- κC1,O) tellurium(II)” Acta Crystallographica. 2003; C59: o571.

Book chapters

  • W. Tan, Z. Cao, D. Shangguan, Y. Li, Z. Tang, P. Mallikaratchy and H. Chen. “Cancer cell proteomics using molecular aptamers”, Drug Discovery Handbook, Ed. Shayne Cox Gad, Wiley-Inter science, 2005; p. 73.
  • H. Chen, Y. Kim, M. O’Donoghue, P. Mallikaratchy, J. Martin, Z. Tang, D. Shangguan, and W. Tan, “Fluorescent Aptamer Probes”, Functional Nucleic Acid Sensors Based on Different Transduction Principles, Eds. Yi Lu and Yingfu Li, SpringerLink. 2007; p.111.

Last modified: Nov 1, 2013