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  1. Freage, L., Jamal, D., and Mallikaratchy, P. “Homodimeric variant of an aptamer generated from LIGS activates TCR-CD3ε Complex”: bioRxiv 2020.05.18.102145.


  2. Zumrut, H.; Yang, Z.; Williams, N.; Arizala, J. D. R.; Batool, S.; Benner, S.; Mallikaratchy, P. R. *”Ligand Guided Selection (LIGS) with Artificially Expanded Genetic Information Systems against TCR-CD3ε”; Biochemistry; 2020 Jan 8. doi: 10.1021/acs.biochem.9b00919.

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  3. Zumrut, H.; Mallikaratchy, P.R.*; “Discovery of artificial nucleic acid ligands against cell surface targets”, ACS Appl. Bio Mater. 2019; in press;

  4. Hasan Zumrut, Sana Batool, Kimon Argyropoulos, Nicole Williams, Roksana Azard, and Prabodhika Mallikaratchy* “Integrating Ligand-receptor Interactions and In Vitro Evolution for Streamlined Discovery of Artificial Nucleic Acid Ligands” Mol Ther Nucleic Acids. 2019 Sep 6;17:150-163. doi: 10.1016/j.omtn.2019.05.015. Epub 2019 Jun 4.

  5. Federica Moccia,Chiara Platella, Domenica Musumeci, Sana Batool, , Hasan Zumrut, John Bradshaw, Prabodhika Mallikaratchy*, Daniela Montesarchio* “The role of G-quadruplex structures of LIGS-generated aptamers R1. 2 and R1. 3 in IgM specific recognition” : Int J Biol Macromol. 2019 Apr 22; 133:839-849. doi:10.1016/j.ijbiomac.2019.04.141; 2019.

  6. US Patent application: 10/253,314, “Ligand-guided-selection method for screening antigen-specific ligands”

  7. S Lingala, LU Nordstrøm, PR Mallikaratchy “Synthesis of stable azide and alkyne functionalized phosphoramidite nucleosides”: Tetrahedron Letters, 2019 January 17; 60(3):211-213. doi:10.1016/j.tetlet.2018.12.018

  8. Sana Batool, Kimon V Argyropoulos, Roksana Azad, Precious Okeoma, Hasan Zumrut, Sanam Bhandari, Rigzin Dekhang, Prabodhika Mallikaratchy* ” Dimerization of an aptamer generated from Ligand-guided selection (LIGS) yields a high affinity scaffold against B-cells “Biochimica et Biophysica Acta (BBA)-General Subjects 1863 (1), 232-240. doi:10.1016/j.bbagen.2018.10.006. Epub 2018 Oct 17.

  9. Federica Moccia, Domenica Musumeci, Chiara Platella, John Bradshaw, Prabodhika Mallikaratchy, Daniela Montesarchio. “Conformational behaviour and molecularity of novel anti-IgM G-quadruplex forming aptamers” 2018 August 19; 256th ACS National Meeting

  10. Hasan Zumrut, Sana Batool, Kimon Argyropoulos, Rigzin Dekhang, Prabodhika Mallikaratchy. “Ligand-guided selection (LIGS): A SELEX variant to identify specific aptamers against cell-surface markers” 2018 August 19. 256th ACS National Meeting.

  11. Sana Batool, Hasan Ekrem Zumrut, Sanam Bhandari, Nabeela Van, Shanell George, Prabodhika Mallikaratchy. “Design of a dimeric aptamer against B-cell receptor” 2018 March 18. 255th ACS National Meeting.

  12. Sana Batool, Sanam Bhandari, Shanell George, Precious Okeoma, Nabeela Van, Hazan E. Zümrüt, and Prabodhika Mallikaratchy “Engineered Aptamers to Probe Molecular Interactions on the Cell Surface” Biomedicines. 2017 Aug 29;5(3). pii: E54. doi:10.3390/biomedicines5030054.

  13. Hazan E. Zümrüt, Sana Batool, Nabeela Van, Shanell George, Sanam Bhandari and Prabodhika Mallikaratchy Structural optimization of an aptamer generated from Ligand guided Selection (LIGS) resulted in high affinity variant toward mIgM expressed on Burkitt’s lymphoma cell lines: Biochimica et Biophysica Acta (BBA)-General Subjects.2017 July 01; 1861(7):1825-1832. pii: S0304-4165(17)30111-3. doi:10.1016/j.bbagen.2017.03.020.

  14. Hasan Ekrem Zumrut, Sana Batool, Nabeela Van, Prabodhika Mallikaratchy. “Optimization of structure of an aptamer discovered utilizing Ligand Guided Selection (LIGS) yields high affinity aptamer” 2017 April 2. 253rd ACS National Meeting.

  15. US Patent Application: 14/727,509 David A Scheinberg, Prabodhika Mallikaratchy, Compositions and methods for treating cancer and other disease

  16. George E Maio, Osita Enweronye, Hasan E Zumrut, Sana Batool, Nabeela A Van, Prabodhika R Mallikaratchy “Systematic Optimization and Modification of a DNA Aptamer with 2’-O- Methyl RNA Analogues” 2017 March 01; ChemistrySelect 2(7), 2335-2340.

  17. Mallikaratchy, P. “Evolution of Complex Target SELEX to Identify Aptamers against Mammalian Cell-Surface Antigens” Molecules. Jan 30;22(2). pii: E215. doi:10.3390/molecules22020215.

  18. Hasan Zümrüt, Naznin Ara, George Maio, Nabeela Van, Sana Battol and Prabodhika Mallikaratchy “Ligand-guided selection of aptamers against T-cell Receptor-cluster of differentiation 3 (TCR-CD3) expressed on Jurkat.E6 cells”. Anal Biochem. 2016 November 01;512:1-7 doi: 10.1016/j.ab.2016.08.007.

  19. George Maio, Hasan Zumrut, Nabeela Van, Sana Batool, Prabodhika Mallikaratchy.“Designing bispecific aptamers for increased stability in human serum” 2016 August 20. 252nd ACS National Meeting

  20. Prabodhika Mallikaratchy. “Ligand-guided selection (LIGS): A screening technology to identify specific aptamers against cell-surface markers”. 2016 August 20. 252nd ACS National Meeting

  21. Hasan Zümrüt, Naznin Ara, Maria Fraile, George Maio, Prabodhika Mallikaratchy “Ligand-guided selection of target-specific aptamers: A screening technology for identifying specific aptamers against cell-surface proteins”. Nucleic Acid Ther. 2016 Jun;26(3):190-8. doi: 10.1089/nat.2016.0611. Epub 2016 May 5.

  22. Prabodhika Mallikaratchy, Hasan Zumrut, Naznin Ara “Discovery of Biomarkers Using Aptamers Evolved in Cell-SELEX Method”, Aptamers selected by cell-SELEX for Theranostics” Principles, Eds. W. Tan and X. Fan, SpringerLink. 2015; p.265.

  23. 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 suitable for pretargeting” Nucleic Acids Therapeutics, Volume: 23 Issue 4: July 31, 2013.

  24. 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.

  25. 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.

  26. Prabodhika Mallikaratchy, Alessandro Ruggiero, William Maguire, Kelly Piersanti, Jeffrey Gardner, Carlos Villa, Freddy Escorcia, Maria Lia Palomba, Mark Heaney, Michael R McDevitt, David A Scheinberg. “Multivalent DNA Aptamer-Based Therapeutic Agents for Lymphoma and Leukemia” Blood. 2009 November 20; 114(22);2711-2711

  27. Prabodhika Mallikaratchy, David Scheinberg. “BIOT 288-Multivalent DNA aptamer-based therapeutic agents for lymphoma” 2009 August 16; 238th ACS National Meeting.

  28. Hui William Chen, Youngmi Kim, Ling Meng, Prabodhika Mallikaratchy, Jennifer Martin, Zhiwen Tang, Dihua Shangguan, Meghan O’Donoghue, Weihong Tan. “Fluorescent Aptamer Sensors” Functional Nucleic Acids for Analytical Applications. 2009; 111-130

  29. Prabodhika Mallikaratchy, Haipeng Liu, Yu Fen Huang, Hui Wang, Dalia Lopez-Colon, Weihong Tan. “Using aptamers evolved from cell-SELEX to engineer a molecular delivery platform” Chem. Commun. 2009; 7 (21): 3056.

  30. Zhiwen Tang, Prabodhika Mallikaratchy, Ronghua Yang, Youngmi Kim, Zhi Zhu, Hui Wang, Weihong Tan. “Aptamer switch probe based on intramolecular displacement” J. Am. Chem. Soc. 2008; 130 (34): 11268.

  31. 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.

  32. Dihua Shangguan, Zehui Cao, Ling Meng, Prabodhika Mallikaratchy, Kwame Sefah, Hui Wang, Ying Li, Weihong Tan. “Cell-specific aptamer probes for membrane protein elucidation in cancer cells” J. Proteomic Res. 2008; 7 (5): 2133.

  33. Prabodhika Mallikaratchy, Zhiwen Tang, Weihong Tan. “Cell specific aptamer– photosensitizer conjugates as a molecular tool in photodynamic therapy” ChemMedChem: Chemistry Enabling Drug Discovery, 2008 March 14; 3(3), 425-428, doi: 10.1002/cmdc.200700260.

  34. 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.

  35. Prabodhika Mallikaratchy, Weihong Tan. “Selective antitumor aptamer-photodynamic agent conjugates as a tool in photochemo therapy” 2007 August 19; 234.

  36. Prabodhika Mallikaratchy. “In Vitro Selection and Development of Aptamers for Biomarker Discovery and Targeted Therapy” ProQuest: 2007.

  37. P Mallikaratchy, H Chen, Z Tang, L Meng, D Shangguan, P Parekh, Y Kim, K Sefah, W Tan. “DNA Aptamers for Molecular Imaging and Profiling of Cancer”, American Pharm. Rev. 2007; 10 (6): 134.

  38. 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. 79(13). 4900: 2007.

  39. Shangguan, D., Tang, Z., Mallikaratchy P., Xiao, Z. and Tan W. “Optimizations and modifications of aptamers selected from live cancer cells” ChemBioChem 8(6). 603:2007.

  40. Dihua Shangguan, Ying Li, Zhiwen Tang, Zehui Charles Cao, Hui William Chen, Prabodhika Mallikaratchy, Kwame Sefah, Chaoyong James Yang, Weihong Tan. “Aptamers evolved from live cells as effective molecular probes for cancer study” Proc. of Natl. Acad. of Sci USA. 2006; 103: 11838.

  41. Prabodhika Mallikaratchy, Robert V Stahelin, Zehui Cao, Wonhwa Cho, Weihong Tan. “Selection of DNA ligands for protein kinase C-δ”, Chemical Communications;30:3229-3231.

  42. Tan, W., Cao, Z., Shangguan, D., Li, Y., Tang, Z., Mallikaratchy, P. and Chen, H.“Cancer cell proteomics using molecular aptamers”, Drug Discovery Handbook, Ed. Shayne Cox Gad, Wiley-Inter science, 2005; p. 73.

  43. 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. 42(2). 243: 2005.

  44. Prabodhika Mallikaratchy, Richard E Norman, Frank R Fronczek, Thomas Junk. “(μ-Diazenediyldiphenyl-κ2C2, N2: κ2C2′, N1) bis [(3, 5-dimethylphenyl) tellurium (II)]” Acta. Crystallographica. 2005; E61 (7): m1370.

  45. Prabodhika Mallikaratchy, Richard E Norman, Frank R Fronczek, Thomas Junk. “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- κ2  C1,O) tellurium(II)” Acta Crystallographica. 2003; C59: o571.