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Dev P. Arya

Dev P. Arya Professor
Bio-Organic and Medicinal Chemistry

Phone: (864) 656-1106
Office: 461 Hunter Laboratories
E-mail: dparya at clemson.edu

Research Interests | Publications 

Dr. Arya earned his B.Sc. (chemistry honors program) from St. Stephen's College, Delhi; and Ph.D. (Bioorganic Chemistry) from Northeastern University, Boston. After spending his postdoctoral years in the labs of Prof. T. C. Bruice (UC Santa Barbara), he joined the faculty at Clemson University. Dr. Arya is a recipient of a National Science Foundation CAREER Award(2002) and the ACS Horace S. Isbell Award of the Division of Carbohydrate Chemistry (2007). He has served as the Program Chair (2004-2008), Chair-Elect (2009-2010) and Chair (2010-2011) of the ACS Division of Carbohydrate Chemistry.

Research Interests

The long term interest of our lab lies in the understanding,Chemistry Photo Arya Profile
design, and discovery of new motifs for the molecular recognition of biological macromolecules for development of novel antibiotics.  We are currently using techniques at the interface of chemical biology, biophysics, medicinal chemistry, small molecule design, structural biology, assay development, and screening technologies to explore nucleic acid and enzyme targets implicated in disease.  A few current examples are listed below. 

1.  Recognition of the major groove of DNA .  An example of current focus of the laboratory is to understand the features that differentiate B-form from A-form DNA and use this knowledge to discover and design molecules that can specifically recognize A-and B-form DNA.  Results obtained are expected to lead to a new pharmacophore for major grooves of A and B-form-DNA recognition that can be further developed to obtain DNA specific molecules with higher affinities and specificities.   Minor groove recognition of DNA was driven by the structures of polyamide-DNA complexes solved during the 80s.  We expect that a similar characterization of a major groove specific ligand will complete an important missing link in the goal of major groove DNA recognition by small molecules leading to the development of more sequence-specific and higher affinity molecules for regulation of transcription.   Similar tools are being applied to the recognition of other higher order DNA and RNA structures, such as triplexes and quadruplexes.

2.  Recognition of the bacterial ribosome.   We are developing novel biophysical assays, synthetic methods and library screening approaches to identify small molecules that bind specifically to the bacterial and fungal ribosomal RNA over the mammalian ribosomal RNA. Lead molecules are screened for antibacterial activity, uptake, and follow up ADMET studies.

3.  New targets for antibacterial drug development.  We are currently developing libraries of compounds that can target bacterial enzymes selectively over their human counterparts.  One such enzyme target under investigation is the bacterial Topoisomerase I.   

The laboratory is equipped to conduct synthesis, physical and structural studies of natural and designed conjugates that are capable of binding to nucleic acids and proteins. These studies are important to both fundamental understanding of macromolecule recognition and to drug development. Based on the information gained from fundamental studies of molecular recognition, biophysics, and supramolecular chemistry, new drug analogues can be synthesized to exhibit altered binding properties with desired biological effects. Ongoing projects combine areas of synthetic organic chemistry,  nucleic acid biophysics, physical organic chemistry, biochemistry, microbiology, pharmacology, and molecular and cell biology. The interdisciplinary nature of these projects allows students to develop a strong basis for future research. The lab maintains active collaborations with other biophysicists, oncologists and infectious disease experts, as evident from our collaborative papers and patents.

[Top]

Publications

[71-80]

71.       Watkins D, Gong C,  Kellish P, Arya DP, Probing A-form DNA: A fluorescent aminosugar probe and dual recognition by anthraquinone-neomycin conjugates 2017, Bioorg Med Chem. Feb 15;25(4):1309-1319.
http://www.sciencedirect.com/science/article/pii/S0968089616307301

 

72.       Anothai Kamphan, Changjun Gong, Krishnagopal Maiti, Souvik Sur, Rakchart Traiphol and Dev P. Arya, Utilization of chromic polydiacetylene assemblies as a platform to probe specific binding between drug and RNA". RSC Adv., 2017, 7, 41435-41443.
http://pubs.rsc.org/en/content/articlelanding/2017/ra/c7ra07178g#!divAbstract

 

73.       Nihar Ranjan, Sandra Story, Geraldine Fulcrand, Fenfei Leng, Muzammil Ahmad, Ada King, Souvik Sur, Weidong Wang, Yuk-Ching Tse-Dinh and Dev P. Arya. “Selective inhibition of E. coli RNA and DNA topoisomerase I by Hoechst 33258 derived mono and bisbenzimidazoles”.  J. Med. Chem. 2017, Jun 22;60(12):4904-4922.
http://pubs.acs.org/doi/abs/10.1021/acs.jmedchem.7b00191

 

74.       Thamban Chandrika N, Shrestha SK, Ranjan N, Sharma A, Arya DP, Garneau-Tsodikova S. New Application of Neomycin B-Bisbenzimidazole Hybrids as Antifungal Agents.
ACS Infect Dis. 2017 Dec 11. doi: 10.1021/acsinfecdis.7b00254
http://pubs.acs.org/doi/abs/10.1021/acsinfecdis.7b00254

 

75.       Ranjan N, Kellish P, King A, Arya DP. Impact of Linker Length and Composition on Fragment Binding and Cell Permeation: Story of a Bisbenzimidazole Dye Fragment. Biochemistry. 2017 Dec 12;56(49):6434-6447.
http://pubs.acs.org/doi/abs/10.1021/acs.biochem.7b00929

 

76. Yang CH, Liu Z, Dong D, Schacht J, Arya D, Sha SH. Front Cell Neurosci. 2017 Oct 24;11:315. Histone Deacetylase Inhibitors Are Protective in Acute but Not in Chronic Models of Ototoxicity.
https://www.frontiersin.org/articles/10.3389/fncel.2017.00315/full

 

77.  Gómez Ramos LM, Degtyareva NN, Kovacs NA, Holguin SY, Jiang L, Petrov AS, Biesiada M, Hu MY, Purzycka KJ, Arya DP, Williams LD. Eukaryotic Ribosomal Expansion Segments as Antimicrobial Targets. Biochemistry. 2017 Oct 10;56(40):5288-5299.
http://pubs.acs.org/doi/abs/10.1021/acs.biochem.7b00703

 

[61-70]

61.       Watkins D, Kumar S, Green KD, Arya DP, Garneau-Tsodikova S. Influence of linker length and composition on enzymatic activity and ribosomal binding of neomycin dimers. Antimicrob Agents Chemother. 2015 Jul;59(7):3899-905. doi: 10.1128/AAC.00861-15. Epub 2015 Apr 20.
http://aac.asm.org/content/59/7/3899.abstract

 

62.       Jiang L, Watkins D, Jin Y, Gong C, King A, Washington AZ, Green KD, Garneau-Tsodikova S, Oyelere AK, Arya DP. Rapid Synthesis, RNA Binding, and Antibacterial Screening of a Peptidic-Aminosugar (PA) Library. ACS Chem Biol. 2015 May 15;10(5):1278-89. PMID:25706406.
http://pubs.acs.org/doi/abs/10.1021/cb5010367

 

63.       Smita NaharNihar RanjanArjun RayDev P. Arya and Souvik Maiti. “Potent inhibition of miR-27a by neomycin–bisbenzimidazole conjugates.” Chem. Sci., 2015,6, 5837-5846. Edge Article.
http://pubs.rsc.org/en/content/articlelanding/2015/sc/c5sc01969a#!divAbstract

 

64.       Sunil Kumar, Meredith Newby Spano, Dev P. Arya.  Influence of linker length in Shape Recognition of B*DNA by Dimeric Aminoglycosides,” Bioorganic & Medicinal Chemistry, 23(13):3105 2015.
http://www.sciencedirect.com/science/article/pii/S0968089615003983

 

65.       Watkins D, Jiang L, Nahar S, Maiti S, Arya DP. “A pH Sensitive High-Throughput Assay for miRNA Binding of a Peptide-Aminoglycoside (PA) Library.” PLoS One. 2015 Dec 11;10(12):e0144251. doi: 10.1371/journal.pone.0144251. eCollection 2015.
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0144251

 

66.       Sayantan Bhaduri, Meredith Newby Spano, and Dev P. Arya, Synthetic receptors for RNA recognition, 2017, in Comprehensive Supramolecular Chemistry II, vol 4: Bioinspired and Biomimetic Supramolecular Chemistry, p 71-113.
https://www.sciencedirect.com/science/article/pii/B9780124095472125508

 

67.       Yi Jin,a Derrick Watkins,b Natalya N. Degtyareva,b Keith D. Green,c Meredith N. Spano,b Sylvie Garneau-Tsodikova,c,* and Dev P. Arya" Arginine-linked neomycin B dimers: synthesis, rRNA binding, and resistance enzyme activity", MedChem Comm, 2016, Jan 1;7(1):164-169. Epub 2015 Oct 3.
http://pubs.rsc.org/en/Content/ArticleLanding/2016/MD/c5md00427f#!divAbstract

 

68.       Kumar S, Ranjan N, Kellish P, Gong C, Watkins D, Arya DP. “ Multivalency in the recognition and antagonism of a HIV TAR RNA-TAT assembly using an aminoglycoside benzimidazole scaffold. Org Biomol Chem. 2016 Feb 14;14(6):2052-6.
http://pubs.rsc.org/-/content/articlelanding/2016/ob/c5ob02016f#!divAbstract

 

69.       Ranjan, N and Arya, DP , Linker dependent intercalation of bisbenzimidazole (Hoechst 33258) derivatives in a RNA duplex, Bioorg Med Chem Lett. 2016 Dec 15;26(24):5989-5994.
http://www.sciencedirect.com/science/article/pii/S0960894X16311246

 

70.       Degtyareva NN, Gong C, Story S, Levinson NS, Oyelere AK, Green KD, Garneau-Tsodikova S, Arya DP. Antimicrobial Activity, AME Resistance, and A-Site Binding Studies of Anthraquinone-Neomycin Conjugates. ACS Infect Dis. 2017 Mar 10;3(3):206-215
http://pubs.acs.org/doi/abs/10.1021/acsinfecdis.6b00176

 

[51-60]

51.       N. Ranjan, D. Watkins, D. Appella,  and D.P. Arya, Recognition of HIV-TAR RNA using neomycin-benzimidazole conjugates.", Bioorg. Med.  Chem. Lett. 2013, Oct 15;23(20):5689-93.
http://www.sciencedirect.com/science/article/pii/S0960894X13009438

 

52.       King, A.; Watkins, D.; Kumar, S.; Ranjan, N.; Gong, C.; Whitlock, J. and Arya.   D.P. “Characterization of  Ribosomal Binding and Antibacterial Activities Using Two Orthogonal High Throughput Capable Screens”.  Antimicrobial Agents and Chemotherapy. 2013, Oct;57(10):4717-26. [PMCID: PMC3811423]
http://aac.asm.org/content/57/10/4717.abstract

 

53.       N. Ranjan, D. Watkins and D.P. Arya, An assay for human telomeric G-quadruplex DNA binding drugs.", Bioorg. Med.  Chem. Lett. 2013, Dec 15;23(24):6695-9.
http://www.sciencedirect.com/science/article/pii/S0960894X13012365

 

54.       Ranjan, Nihar; Davis, Erik; Xue, Liang; Arya, Dev P. Dual recognition of the human telomeric G-quadruplex by a neomycin-anthraquinone conjugate. Chemical Communications. 2013, 49(51), 5796-5798.
http://pubs.rsc.org/en/Content/ArticleLanding/2013/CC/c3cc42721h#!divAbstract

 

55.       Ranjan, N.; Arya, D.P. Targeting C-myc G-quadruplex: dual recognition by aminosugar-bisbenzimidazoles with varying linker lengths. Molecules, 2013, Nov 18;18(11):14228-40.
https://www.ncbi.nlm.nih.gov/pubmed/24252993

 

56.       Kumar, S.; Newby, M.; Arya, D.P.; Shape readout of B' form DNA by carbohydrates, Biopolymers. 2014, 101, 720-32, [PMCID: PMC4112085]
https://www.ncbi.nlm.nih.gov/pubmed/24281844

 

57.       Kellish, P.C., Kumar, S., Mack, T.S., Spano, M.N., Hennig, M., and Arya, D.P. “Multivalent amino sugars to recognize different TAR RNA conformations”, Med Chem Comm. 2014, Jun 1;5(6):816-825.
http://pubs.rsc.org/en/Content/ArticleLanding/2014/MD/c4md00165f#!divAbstract

 

58.       King, A.; Kumar, S.; Ranjan, N.; Gong, C.; Leng, F; and Arya.   D.P. “Selective inhibition of bacterial topoisomerase I by alkynyl-bisbenzimidazoles”, Med. Chem. Commun. 2014, 5, 816-825. [PMCID: PMC4112416].
http://pubs.rsc.org/en/Content/ArticleLanding/2014/MD/c4md00140k#!divAbstract

 

59.       Woo CM, Ranjan N, Arya DP, Herzon SB. Analysis of diazofluorene DNA binding and damaging activity: DNA cleavage by a synthetic monomeric diazofluorene. Angew Chem Int Ed Engl. 2014 Aug 25;53(35):9325-8.
https://www.ncbi.nlm.nih.gov/pubmed/25044348

 

60.       Willis B, Arya DP. Recognition of RNA duplex by a neomycin-Hoechst 33258 conjugate. Bioorg Med Chem. 2014 Apr 1;22(7):2327-32. doi: 10.1016/j.bmc.2014.02.003. Epub 2014 Feb 18. PMID: 24630691
http://www.sciencedirect.com/science/article/pii/S0968089614000984

 

[41-50]

41.       Arya D.P. "New Approaches to Recognition of Nucleic Acid Triple Helices", Acc. Chem. Res., 2011, 44 (2), pp 134–146.
http://pubs.acs.org/doi/abs/10.1021/ar100113q

42.       Xue, L; Ranjan, N; Arya, D. P. "Synthesis and spectroscopic studies of aminoglycoside (Neomycin)-Perylene conjugate binding to Human Telomeric DNA", Biochemistry. 2011, 50, 2838-2849.
http://pubs.acs.org/doi/abs/10.1021/bi1017304

43.       Kumar, S.; Xue, L.; Arya, D.P. "Neomycin-Neomycin Dimer: An All Carbohydrate Scaffold with High Affinity for AT Rich DNA Duplexes", J. Amer. Chem. Soc. 2011, 133, 7361-7375.
http://pubs.acs.org/doi/abs/10.1021/ja108118v
http://pubs.acs.org/doi/abs/10.1021/cen-v088n039.p050

 

44.       Kumar, S. and Arya, D. P. "Recognition of HIV TAR RNA by aminosugars", Bioorg. Med.  Chem. Lett. 2011, 21, 4788-4792.
http://www.sciencedirect.com/science/article/pii/S0960894X11008419
http://www.sciencedirect.com/science/article/pii/S0960894X11017306

 

45.       Xi, H., Davis, E.; Xue, L., Ranjan, N; Hyde-Volpe. D. and Arya, D. P. Thermodynamics of Nucleic Acid 'Shape readout' by aminosugars, 2011, Biochemistry, 50, 9088-9113.
http://pubs.acs.org/doi/abs/10.1021/bi201077h

 

46.       Hamilton, P. and Arya, D. P. "Natural Product DNA major groove binders", Natural Product Reviews. 2012, 29, 134-143.
http://pubs.rsc.org/en/content/articlelanding/2012/np/c1np00054c#!divAbstract

 

47.       Charles, I.; Davis, Erik; Arya, Dev P. "Efficient Stabilization of Phosphodiester
(PO), Phosphorothioate (PS), and 2'-O-Methoxy (2'-OMe) DNA·RNA
Hybrid Duplexes by Amino Sugars. Biochemistry. 2012, 51(27), 5496-5505.
http://pubs.acs.org/doi/abs/10.1021/bi3004507
http://pubs.acs.org/doi/abs/10.1021/bi301245w

 

48.       S. Kumar, P. Kellish, W.E. Robinson Jr, D. Wang, D.H. Appella, D.P. Arya, Click Dimers To Target HIV TAR RNA Conformation, Biochemistry. 2012, 51 2331-2347.
http://pubs.acs.org/doi/abs/10.1021/bi201657k
http://pubs.acs.org/doi/abs/10.1021/bi401088n

 

50.       Watkins, D.; Norris, F.A.; Kumar, S.; and Arya. D.P.  “A Fluorescence Based Screen for Ribosome Binding Antibiotics”.  Analytical Biochemistry. 2013, 434(2):300-7.
http://www.sciencedirect.com/science/article/pii/S0003269712006161

[31-40]

31.           Arya, D. P.; Shaw, N.; Xi, H. “Novel targets for aminoglycosides.” In      Aminoglycoside Antibiotics: From Chemical Biology to Drug Discovery, Arya, Dev P.; Ed. John Wiley and Sons: New Jersey, 2007; pp 289-314.

32.       Arya, D.P, Editor.; “Aminoglycoside Antibiotics: From Chemical Biology to Drug Discovery” John Wiley & Sons, 2007.
http://pubs.acs.org/doi/abs/10.1021/ja076997o
http://pubs.acs.org/doi/abs/10.1021/jm701010a

 

33.       Shaw, N. N.; Xi, H.; Arya, Dev P. "Molecular recognition of a DNA:RNA hybrid: Sub-nanomolar binding by a neomycin-methidium conjugate." Bioorg. Med. Chem. Lett. 2008, 18 (14), 4142-4145.
http://www.sciencedirect.com/science/article/pii/S0960894X08005970

 

34.       Shaw, N. N.; Arya, D. P. "Recognition of the unique structure of DNA:RNA hybrids." Biochimie 2008, 90 (7), 1026-1039.
http://www.sciencedirect.com/science/article/pii/S0300908408001090

 

35.     Xi, Hongjuan; Gray, David; Kumar, Sunil, et al. “Molecular recognition of single-     stranded RNA: Neomycin binding to poly(A)”; FEBS Letters, 2009. 583,13, 2269-2275.
http://onlinelibrary.wiley.com/doi/10.1016/j.febslet.2009.06.007/abstract

 

36.  Willis, B; Arya, DP; “Triple recognition of B-DNA”. Bioorg. Med. Chem. Lett. 2009, 19, 17; 4974-4979.
http://www.sciencedirect.com/science/article/pii/S0960894X09010300

 

37.       Kumar, S., Xi, H., Micovic, L., and Arya, D. P. Calorimetric and Spectroscopic Studies of Aminoglycoside Binding to a DNA Triplex. Biochimie, 2010, 92, 5, 514-529.
http://www.sciencedirect.com/science/article/pii/S0300908410000489

 

38.    Willis, B., and Arya, D. P. Triple Recognition of B-DNA by a Neomycin-Hoechst 33258-Pyrene Conjugate. Biochemistry, 2010, 49, 452-469.
http://pubs.acs.org/doi/abs/10.1021/bi9016796

 

39.       Xue, L., Xi, H., Kumar, S., Gray, D., and Arya, D. P. Probing the Recognition Surface of a DNA Triplex: Synthesis and Binding of Neomycin-Intercalator Conjugates. Biochemistry, 2010, 49 (26), 5540-5552.
http://pubs.acs.org/doi/abs/10.1021/bi100071j

 

40.       Ranjan, N.; Andreasen, K; Kumar, S.; Hyde-Volpe. D. and Arya, D. P. Aminoglycoside binding to Oxytricha Nova Telomeric DNA Biochemistry. 2010, 49, 9891-9903.
http://pubs.acs.org/doi/abs/10.1021/bi101517e

[21-30]

21.       Arya, D. P., R. L. Coffee Jr and Xue L.   “From triplex to B-form duplex stabilization: reversal of target selectivity by aminoglycoside dimers “. Bioorg. Med. Chem. Letts, 2004, 14, 18, 4643-4646.
http://www.sciencedirect.com/science/article/pii/S0960894X0400887X

 

22.       Charles, I.; Arya, D. P. “Synthesis of Neomycin-DNA/Peptide Nucleic Acid conjugates” J. Carb. Chem. 2005, 24, 145-160.
http://www.tandfonline.com/doi/abs/10.1081/CAR-200059973

 

23.       Arya, D. P. “Aminoglycoside-Nucleic Acid Interactions: The case for neomycin” in Top. Curr. Chem.  DNA Binders, Editors-Chaires, JB; Waring, M; 2005, 253, 149-178.
http://www.springer.com/us/book/9783540228356

 

24.       Xi, H.; and Arya, D.P.; “Recognition of triplex structures by Aminoglycosides”, Current Medicinal Chemistry, Aniticancer agents, an issue dedicated to the late Claude Helene, 2005, vol. 5, no. 4, pp. 327-338(12).
http://www.ingentaconnect.com/contentone/ben/cmcaca/2005/00000005/00000004/art00003

 

25.       Napoli, S., Carbone, GM, Catapano, C., Shaw, N, Arya, D. P.; “Neomycin improves cationic lipid-mediated transfection of DNA in human cells”. Bioorg. Med. Chem. Letters. 2005, 15, 3467–3469.
http://www.sciencedirect.com/science/article/pii/S0960894X05005202

 

26.       Willis, B.; and Arya, D.P.; “Major groove recognition of DNA by carbohydrates”, Curr. Org. Chem., Carbohydrates in Drug Design, 2006, 10, 663-673.
http://www.eurekaselect.com/55718/article/major-groove-recognition-dna-carbohydrates

 

27.       Willis, B.; Arya, D. P. “An Expanding view of aminoglycoside-Nucleic Acid Interactions” Adv. Carb. Chem. Biochem.  2006, vol 60, Chapter 6, 263-314.
https://www.elsevier.com/books/advances-in-carbohydrate-chemistry-and-biochemistry/horton/978-0-12-007260-6

 

28.       Willis, B.; Arya, D. P.; “Recognition of B-form DNA by neomycin-Hoechst 33258 conjugates” Biochemistry. 2006, 10217-10232.
http://pubs.acs.org/doi/abs/10.1021/bi0609265


29.       Arya, D. P.;Diazo and Diazonium DNA cleavage agents: Studies on Model systems and Natural product mechanism of action”, Top. Heterocyclic Antitumor Antibiotics, Series: Topics in Heterocyclic Chemistry , Lee, Moses (Ed.). 2006, Vol. 2.

 

30. Charles, I.; Hongjuan Xi, and Arya, D.P.; “Sequence-Specific Recognition of RNA by neomycin-DNA conjugates”, Bioconj. Chem., 2007, 18(1) pp 160 – 169.
http://pubs.acs.org/doi/abs/10.1021/bc060249r

 

[11-20]

11. Arya, D. P.; R. Lane Coffee Jr.  “DNA Triple Helix Stabilization by Aminoglycoside Antibiotics” Bioorg. Med.  Chem. Letts, 2000, 10,17, 1897-1899.
http://www.sciencedirect.com/science/article/pii/S0960894X00003723


12. Arya, D. P.; R. Lane Coffee Jr.; Willis, B; Abramovitch, A. “ Aminoglycoside-Nucleic Acid Interactions: Remarkable Stabilization of DNA & RNA Triple Helices by Neomycin”. J. Amer. Chem. Soc, 2001; 123(23); 5385-5395.
http://pubs.acs.org/doi/abs/10.1021/ja003052x


13. Arya, D. P.; Coffee, R. L., Jr.; Charles, I. "Neomycin-Induced Hybrid Triplex Formation" J. Amer. Chem. Soc. 2001, 123, 11093-11094.
http://pubs.acs.org/doi/abs/10.1021/ja016481j


14. Xue, L.; Charles, I.; Arya, D. P. "Pyrene–Neomycin Conjugate: Dual Recognition of a DNA Triple Helix" Chemical Communications 2002, 70-71.
http://pubs.rsc.org/en/Content/ArticleLanding/2002/CC/b108171c#!divAbstract


15. Arya, D. P.; I. Charles and Liang Xue.; Synthesis of Aminoglycoside-Nucleic Acid Conjugates, Bioorg. Med.  Chem. Letts, 2002, 12, 9, 1259-1262.

Corrigendum to ‘Synthesis of Aminoglycoside–DNA Conjugates’ [Bioorg. Med. Chem. Lett. 12 (2002) 1259], Bioorg. Med.  Chem. Letts, 2003, Volume 13, Issue 9, Page 1607.
http://www.sciencedirect.com/science/article/pii/S0960894X02001579
http://www.sciencedirect.com/science/article/pii/S0960894X03001653


16. Arya, D. P.; R. Lane Coffee Jr.; Charles, I.; Willis, B; Micovic, L.; Neomycin binding to triplex Watson-Hoogsteen Groove-A Model, J. Amer. Chem. Soc. 2003, 125, 3733-3744., also see C&E News, “Triplex Selective Groove Binder”2003, March 24, p26.
http://pubs.acs.org/doi/abs/10.1021/ja027765m


17. W. Clay Davis, Jacob L. Venzie, R. Lane Coffee, Jr., Bert Willis, Dev P. Arya, and R. Kenneth Marcus, "Particle Beam Glow Discharge Mass Spectrometry: Spectral Characteristics of Nucleobases and Oligonucleotides", Rapid. Commun. Mass Spectrom 2003, 17(15):1749-58.
https://www.ncbi.nlm.nih.gov/pubmed/12872280


18. Arya, D. P.; Xue, L.; and Tennant, P.; Combining the Best in Triplex Recognition: Synthesis and Nucleic Acid Binding of a BQQ-Neomycin Conjugate.  J. Amer. Chem. Soc. 2003, 125, 8070-8071.
http://pubs.acs.org/doi/abs/10.1021/ja034241t


19. Arya, D. P.; Xue, L.; and Bert Willis. “Aminoglycoside (Neomycin) Preference is for A-form Nucleic Acids, not just RNA: Results from a Competition Dialysis Study” J. Amer. Chem. Soc. 2003, 10148-10149.
http://pubs.acs.org/doi/abs/10.1021/ja035117c


20. Arya, D. P. and Bert Willis.  “Reaching into the major groove of B-DNA, Synthesis and Nucleic Acid Binding of a neomycin-Hoechst 33258 conjugate” J. Amer. Chem. Soc. 2003, 12398-12399.
http://pubs.acs.org/doi/abs/10.1021/ja036742k

 

[1-10]
1. Arya, D. P.; Warner, P. M.; Jebaratnam, D. J. “Development of New DNA Binding and Cleaving Molecules: Design, Synthesis and Activity of a Bisdiazonium Salt.”Tetrahedron  Lett. 1993, 34, 7823-7826.
http://www.sciencedirect.com/science/article/pii/S0040403900614855


2. Jebaratnam, D. J.; Kugabalasooriar, S.; Chen, H.; Arya, D. P. " Azoester compounds for inducing DNA cleavage under physiological conditions."     Tetrahedron Lett. 1995, 36, 3123.
http://www.sciencedirect.com/science/article/pii/004040399500480Z

 

3. Arya, D. P.; Jebaratnam, D. J. " DNA cleaving activity of 9 - diazo fluorenones and diaryl diazomethanes: Implications for the mode of action of Kinamycin antibiotics." J. Org. Chem. 1995, 60, 3268.
http://pubs.acs.org/doi/abs/10.1021/jo00116a002

 

4. Jebaratnam, D. J.; Arya, D. P.; Chen, H.; Kugabalasooriar, S.; Vo, D."A  single precursor  approach  to  new  DNA cleaving  and  crosslinking  agents." Bioog. Med. Chem. Lett. 1995, 5, 1191.
http://www.sciencedirect.com/science/article/pii/0960894X9500193W

 

5. Arya, D. P.; Jebaratnam, D. J. “Towards  the  development  of  non-enediyne approaches  for  mimicking  enediyne  chemistry: Design, synthesis  and  activity  of  a  1,4-bisdiazonium  compound."Tetrahedron Lett. 1995, 36, 4369. 
http://www.sciencedirect.com/science/article/pii/004040399500815T

 

6. Arya, D. P.; Bruice, T. C. “Replacement of the Negative Phosphodiester Linkages of DNA by Positive S-Methyl Thiourea Linkers; A Novel Approach to Putative Antisense Agents” J. Amer. Chem. Soc. 1998,120, 6619-6620.
http://pubs.acs.org/doi/abs/10.1021/ja980629q


7. Arya, D. P.; Bruice, T. C. “Positively Charged DeoxyNucleic MethylThioureas: Synthesis and Binding Properties of Pentameric Thymidyl DeoxyNucleic Methylthiourea” J. Amer. Chem. Soc. 1998, 120, 12,419 -12,427.
http://pubs.acs.org/doi/abs/10.1021/ja9829416

 

8. Arya, D. P.; Bruice, T. C. “ Kinetics and thermodynamics of pentameric thymidyl DNmt binding to short strand DNA homooligomers.” Proc. Natl. Acad. Sci. USA. 1999, 96, 4384-4389.

9. Arya, D. P.; Bruice, T. C. “Fidelity of deoxynucleic S-methythiourea (DNmt) binding to DNA oligomers: Influence of C mismatches”. J. Amer. Chem. Soc, 1999; 121(46); 10680-10684.
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10. Arya, D. P.; Bruice, T. C. “Solid-phase synthesis of oligomeric deoxynucleic-thiourea (DNT) and deoxynucleic S-methylthiourea (DNmt): a neutral/polycationic analogue of DNA” Bioorg. Med. Chem. Letts 2000, 10, 8, 691-93. 
http://www.sciencedirect.com/science/article/pii/S0960894X00000858

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