Professor and Director, IISER Tirupati

Kadam, V.; Krishnan, S.; Ganesh, K. N. 5-Amidodansyl-U(UD) Peptide Nucleic Acid (PNA) as a Fluorescent Sensor of Local Dielectric Constant (ε) in PNA Duplexes: Major Groove in PNA Duplexes are more Hydrophobic than Major Groove in DNA-DNA Duplexes. J. Phys. Chem. C2018122(25), 14004–14013 DOI: 10.1021/acs.jpcc.8b01098

 

Datta, D.; Tiwari, O.; Ganesh, K. N. New archetypes in self-assembled Phe-Phe motif induced nanostructures from nucleoside conjugated-diphenylalanines. Nanoscale, 2018, 10, 3212-3224.  DOI: 10.1039/C7NR08436F

 

Sangabathuni, S.; Murthy, R. V.; Gade, M.; Bavireddi, H.; Toraskar, S.; Sonar, M. V.; Ganesh, K. N.; Kikkeri R. Modeling glyco-collagen conjugates using host-guest strategy to alter phenotypic cell migration and in vivo wound healing. ACS Nano201711 (12), 11969–11977 . DOI: 10.1021/acsnano.7b01789

 

Bansode, N. D.; Madhanagopal, B.; Sonar, M. V.; Ganesh, K. N. Stereodependent and solvent specific formation of unusual β-structure through side chain-backbone H-bonding in C4(S)-(NH2/OH/NHCHO)-L-prolyl polypeptides. Peptide Science 2017, 108(1), e22981. DOI:10.1002/bip.22981

 

Ellipilli, S.; Palvai, S. K.; Ganesh, K. N. Fluorinated peptide nucleic acids with fluoroacetyl sidechain bearing 5-(F/CF3)-uracil: synthesis and cell uptake studies. J. Org. Chem. 2016, 81(15), 6364-6373.

 

Bansode, N. D.; Sonar, M. V.; Ganesh, K. N. A nanofiber assembly directed by the non-classical antiparallel β-structure from 4S-(OH) proline polypeptide. â€‹Chem. Commun2016, 52(27), 4884-4887.

Ellipilli, S.; Vasudeva M. R.; Ganesh, K. N. Perfluoroalkylchain conjugation as a new tactic for enhancing cell permeability of peptide nucleic acids (PNAs) via reducing the nanoparticle size. 
Chem. Commun. 2016, 52(3), 521-524.

Ellipilli, S.; Ganesh, K. N. Fluorous Peptide Nucleic Acids: PNA Analogues with Fluorine in Backbone (γ-CF2-apg-PNA) Enhance Cellular Uptake . 
J. Org. Chem2015, 80(18), 9185-9191.

Umashankara, M.; Sonar, M. V.; Bansode, N. D.; Ganesh, K. N. Orchestration of Structural, Stereoelectronic, and Hydrogen-Bonding Effects in Stabilizing Triplexes from Engineered Chimeric Collagen Peptides (ProX-ProY-Gly)6 Incorporating 4(R/S)-Aminoproline. 
J. Org. Chem. 2015, 80(17), 8552-8560.

Jain, D. R.; Anandi V, L.; Lahiri, M.; Ganesh, K. N. Influence of pendant chiral Cγ-(Alkylideneamino/Guanidino) cationic side-chains of PNA backbone on hybridization with complementary DNA/RNA and cell permeability. 
J. Org. Chem2014, 79(20), 9567-9577.

Jain, D. R.; Ganesh, K. N. Clickable Cγ-Azido(methylene/butylene) Peptide Nucleic Acids and Their Clicked Fluorescent Derivatives: Synthesis, DNA Hybridization Properties, and Cell Penetration Studies. 
J. Org. Chem2014, 79(14), 6708-6714.

Ganesh, K. N.; Krishnan, Y. Nucleic Acids - Chemistry and Applications. 
Org. Lett. 201315, 6115.

Umashankara, M.; Nanda, M.; Sonar, M. V.; Ganesh, K. N. 4(R/S)-amino/guanidino-substituted proline peptides: design,synthesis and DNA transfection properties. 
Chimia 2012, 66, 936–940.

Mitra, R.; Ganesh, K. N. Aminomethylene Peptide Nucleic Acid (am-PNA): Synthesis, Regio-/Stereospecific DNA Binding, And Differential Cell Uptake of (α/γ,R/S)am-PNA Analogues. 
J. Org. Chem. 2012, 77, 5696–5704.

Gourishankar, A.; Ganesh, K. N. (α,α-dimethyl)glycyl (dmg) PNAs: achiral PNA analogs that form stronger hybrids with cDNA relative to isosequential RNA.
 Artif DNA PNA XNA, 2012, 3, 5–13.

Sharma, N. K.; Ganesh, K. N. Enhanced stability of G-quadruplexes from conformationallyconstrainedaep-PNA backbone. 
Org. Biomol. Chem2011, 9, 725–729.

Mitra, R.; Ganesh, K. N. PNAs grafted with (α/γ, R/S)-aminomethylene pendants: Regio and stereo specific effects on DNA binding and improved cell uptake. 
Chem. Commun. 2011, 47, 1198–1200.

Vysabhattar, R.; Ganesh, K. N. In situ, on-resin synthesis of 8-Br/NH2adeninyl peptide nucleic acid (PNA) oligomers and complementation studies with DNA. 
Tetrahedron Lett. 2010, 51, 6560–6564.


Sonar, M. V.; Ganesh, K. N. Water-induced switching of β-structure to polyproline II conformation in the 4S-aminoproline polypeptide via H-bond rearrangement. 
Org. Lett. 2010, 12, 5390–5393.

Sharma, N. K.; Ganesh, K. N. Base dependent pyrrolidine ring pucker inaep-PNA monomers: NMR and PSEUROT analysis. 
Tetrahedron 2010, 66, 9165–9170.

Patwa, A. N.; Gonnade, R. G.; Kumar, V. A.; Bhadbhade, M. M.; Ganesh, K. N. Ferrocene-Bis(thymine/uracil) Conjugates: Base Pairing Directed, Spacer DependentSelf-Assembly and Supramolecular Packing. 
J. Org. Chem. 2010, 75, 8705–8708.

Bhattacharya, A. K.; Kaur, T.; Ganesh, K. N. Synthesis of the antibacterial benzoquinone primin and its water-soluble analogue, primin acid. 
Synthesis 2010, 1141–1144. 

 

Ganesh, K. N. PNA analogs with potential for selective RNA targeting.in CARB–037 (American Chemical Society, 2009).

Vysabhattar, R.; Ganesh, K. N. Cyanuryl peptide nucleic acid: synthesis and DNA complexation properties. 
Tetrahedron Lett. 2008, 49, 1314–1318.

Purbey, P. K.; Singh, S.; Kumar, P. P.; Mehta, S.; Ganesh, K. N.; Mitra, D.; Galande, S. PDZ domain-mediated dimerization and homeodomain-directed specificity are required for high-affinity DNA binding by SATB1. 
Nucleic Acids Res. 2008, 36, 2107–2122.

Patwa, A. N.; Susmita Gupta, S.; Rajesh G. Gonnade, R. G.; Vaijayanti A. Kumar, V. A.; Bhadbhade, M. M.; Ganesh, K. N. Ferrocene-Linked Thymine/Uracil Conjugates: Base Pairing Directed Self-Assembly and Supramolecular Packing.
J. Org. Chem. 2008,73, 1508–1515.

Bhattacharya, A. K.; Diallo, M. A.; Ganesh, K. N. SbCl3 as a highly efficient catalyst for the acetylation of alcohols, phenols, and amines under solvent-free conditions.
Synth.Commun. 2008,38, 1518–1526.

Vijayan, V. A.; Sathish Kumar, B. Y.; Ganesh, K. N.; Urmila, J; Fakoorziba, M. R.; Makkapati, A. K. Efficacy of piperonylbutoxide (PBO) as a synergist with deltamethrin on five species of mosquitoes.
J.Commun. Dis. 2007,39, 159–163.

Kumar, V. A.; Ganesh, K. N. Structure-editing of nucleic acids for selective targeting of RNA.
Curr.Top. Med. Chem. (Sharjah, United Arab Emirates) 2007,7, 715–726.

Ganesh, K. N.; Gourishankar, A.; Vysabhattar, R.; Bokil, P. Property editing of peptide nucleic acids (PNA): gem-dimethyl,cyanuryl and 8-aminoadenine PNAs.
Nucleic Acids Symp. Ser. 2007, 17–18.

Narayana, N.;Shamala, N.; Ganesh, K. N.;Viswamitra, M. A. Interaction between the Z-Type DNA Duplex and 1,3-Propanediamine: Crystal Structure of d(CACGTG)2 at 1.2 Å Resolution.
Biochemistry 2006,45, 1200–1211.

Govindaraju, T.; Madhuri, V.; Kumar, V. A.; Ganesh, K. N.Cyclohexanyl Peptide Nucleic Acids (chPNAs) for Preferential RNA Binding: Effective Tuning of Dihedral Angle β in PNAs for DNA/RNA Discrimination.
J. Org. Chem. 2006, 71, 14–21.

Shirude, P. S.; Kumar, V. A.; Ganesh, K. N. BisPNA targeting to DNA: Effect ofneutral loop on DNA duplex strand invasion by aepPNA-N7GlaepPNA-C substituted peptide nucleic acids.
Eur. J. Org. Chem. 2005,5207–5215.

Sharma, N. K. & Ganesh, K. N. PNA C-C+i-motif: superior stability of PNA TC8 tetraplexes compared to DNA TC8 tetraplexes at low pH.
Chem. Commun. (Cambridge, U. K.) 2005, 4330–4332.


Kumar, V. A; Ganesh, K. N. Conformationally Constrained PNA Analogues: Structural Evolution toward DNA/RNA Binding Selectivity
. Acc. Chem. Res. 2005, 38, 404–412.

Govindaraju, T.; Kumar, V. A.; Ganesh, K. N. (SR/RS)-Cyclohexanyl PNAs: ConformationallyPreorganized PNA Analogues with Unprecedented Preference for Duplex Formation with RNA.
J. Am. Chem. Soc. 2005,127, 4144–4145.

Dandekar, D. H.; Kumar, M.;Ladha, J. S.; Ganesh, K. N.;Mitra, D. A quantitative method for normalization of transfection efficiency using enhanced green fluorescent protein.
Anal.Biochem. 2005,342, 341–344.

Shirude, P. S.; Kumar, V. A.; Ganesh, K. N. Chimeric peptide nucleic acids incorporating (2S,5R)-aminoethylpipecolyl units: synthesis and DNA binding studies.
Tetrahedron Lett. 2004,45, 3085–3088.

Shirude, P. S.; Kumar, V. A.; Ganesh, K. N. (2S,5R/2R,5S)-Aminoethylpipecolylaepip-aegPNA chimera: synthesis and duplex/triplex stability.
Tetrahedron 2004,60, 9485–9491.

Sharma, N. K.; Ganesh, K. N. Regioselective oxidation of N-alkylpyrrolidines to pyrrolidin-5-ones by RuCl3/NaIO4.
Tetrahedron Lett. 2004, 45, 1403–1406.

Ramakrishnan, V.; D’Costa, M.; Ganesh, K. N.; Sastry, M. Effect of salt on the hybridization of DNA by sequential immobilization of oligonucleotides at the air-water interface in the presence of ODA/DOTAP monolayers.
J. Colloid Interface Sci. 2004, 276, 77–84.

Lonkar, P. S., Ganesh, K. N. & Kumar, V. A. Chimeric (aeg-pyrrolidine)PNAs: synthesis and stereo-discriminative duplex binding with DNA/RNA.
Org. Biomol. Chem. 2004, 2, 2604–2611.

Kumar, V. A.; D’Costa, M.; Lonkar, P. S.; Meena P.; Pallan P. S.; Ganesh, K. N. Conformationally restricted cationic polyamide analogs of nucleic acids: Design, synthesis, and DNA/RNA binding studies.
Pure Appl. Chem. 2004, 76, 1599–1603.

Joshi, H.; Shirude, P. S.; Bansal, V.; Ganesh, K. N.; Sastry, M. Isothermal titration calorimetry studies on the binding of amino acids to gold nanoparticles.
J. Phys. Chem. B 2004,108, 11535–11540.

Govindaraju, T.; Kumar, V. A.; Ganesh, K. N. Synthesis and Evaluation of (1S,2R/1R,2S)-Aminocyclohexylglycyl PNAs as ConformationallyPreorganized PNA Analogues for DNA/RNA Recognition.
J. Org. Chem.2004, 69, 1858–1865.

Govindaraju, T.; Kumar, V. A.; Ganesh, K. N. cis-Cyclopentyl PNA (cpPNA) as constrained chiral PNA analogues: stereochemical dependence of DNA/RNA hybridization
. Chem. Commun. (Cambridge, U. K.) 2004, 860–861.


Govindaraju, T.; Kumar, V. A.; Ganesh, K. N. (1S,2R/1R,2S)-cis-Cyclopentyl PNAs (cpPNAs) as Constrained PNA Analogs: Synthesis and Evaluation of aeg-cpPNA Chimera and Stereopreferences in Hybridization with DNA/RNA.
J. Org. Chem. 2004, 69, 5725–5734.


Gourishankar, A.; Shukla, S.; Ganesh, K. N.; Sastry, M. Isothermal Titration Calorimetry Studies on the Binding of DNA Bases and PNA Base Monomers to Gold Nanoparticles
. J. Am. Chem. Soc. 2004,126, 13186–13187.

Dandekar, D. H.; Ganesh, K. N.; Mitra, D. HIV-1 Tat directly binds to NFκB enhancer sequence: role in viral and cellular gene expression.
Nucleic Acids Res. 2004, 32, 1270–1278.

Umashankara, M.; Ramesh Babu, I.; Ganesh, K. N. Two prolines with a difference: contrasting stereoelectronic effects of 4R/S-aminoproline on triplex stability in collagen peptides [Pro(X)-Pro(Y)-Gly]n.
Chem. Commun. (Cambridge, U. K.) 2003, 2606–2607.


Sunilkumar, G.; Nagamani, D.; Argade, N. P.; Ganesh, K. N. Synthesis of marine natural product (2S,5S)-pyrrolidine-2,5-dicarboxylic acid.
Synthesis 2003, 2304–2306. 

Sharma, N. K.; Ganesh, K. N. Expanding the repertoire of pyrrolidyl PNA analogues for DNA/RNA hybridization selectivity: aminoethylpyrrolidinone PNA (aepone-PNA).
Chem. Commun. (Cambridge, U. K.) 2003, 2484–2485.

Kumar, A.; Guga, P; Phadtare, S.; Ganesh, K. N.; Sastry, M.; Pasricha, R. Assembling gold nanoparticles in solution using phosphorothioate DNA asstructural interconnects.
Curr. Sci. 2003, 84, 71–74.

Kumar, A. R.; Hegde, S. S.; Ganesh, K. N.; Khan, M. I. Structuralchanges enhance the activity of Chainia xylanase in low urea concentrations.
Biochim.Biophys.Acta, Proteins Proteomics 2003,1645, 164–171.

Govindaraju, T.; Gonnade, R. G.; Bhadbhade, M. M.; Kumar, V. A.; Ganesh, K. N. (1S,2R/1R,2S)-AminocyclohexylGlycyl Thymine PNA: Synthesis, Monomer Crystal Structures, and DNA/RNA Hybridization Studies.
Org. Lett. 2003, 5, 3013–3016.

D’Costa, M.; Kumar, V. A.; Ganesh, K. N. N7-Guanine as a C+ mimic in hairpin aeg/aepPNA-DNA triplex: Probing binding selectivity by UV-Tm and kinetics by fluorescence-based strand-invasion assay.
J. Org. Chem. 2003,68, 4439–4445.

Sastry, M.; Rao, M.; Ganesh, K. N. Electrostatic assembly of nanoparticles and biomacromolecules.
Acc. Chem. Res. 2002, 35, 847–855.

Ramakrishnan, V.; D’Costa, M.; Ganesh, K. N.;Sastry, M. PNA-DNA Hybridization at the Air-Water Interface in the Presence of Octadecylamine Langmuir Monolayers.
Langmuir 2002,18, 6307–6311.

Kumar, A.; Ramakrishnan, V.; Gonnade, R.; Ganesh, K. N.;Sastry, M. Electrostatically entrapped DNA molecules in lipid thin films as templates for the in situ growth of silver nanoparticles.
Nanotechnology 2002,13, 597–600.

Ganesh, K. N.; Sastry, M. DNA-amine interactions: From monolayers to nanoparticles.
J. Indian Inst. Sci. 2002, 82, 105–112.

Easwar, S.; Desai, S. B.; Argade, N. P.; Ganesh, K. N. Enantioselective enzymatic approach to (+)- and (-)-2-acetoxy/hydroxycyclopentanones.
Tetrahedron: Asymmetry 2002,13, 1367–1371.

D’Costa, M.; Kumar, V.; Ganesh, K. N. Synthesis of 4(S)-(N-Boc-amino)-2(S/R)-(thymin-1-ylmethyl)-pyrrolidine-N-1-acetic acid: a novel cyclic PNA with constrained flexibility.
Tetrahedron Lett. 2002,43, 883–886.

Sastry, M.; Ramakrishnan, V.; Pattarkine, M.; Ganesh, K. N. Studies on the formation of DNA-cationic lipid composite films and DNA hybridization in the composites.
J. Phys. Chem. B 2001,105, 4409–4414.

Sastry, M.; Kumar, A.; Ramakrishnan, V.; Ganesh, K. N.; Pattarkine, M. Cationic surfactant-mediated hybridization and hydrophobization of DNA molecules at the liquid/liquid interface and their phase transfer.
Chem. Commun. (Cambridge, U. K.) 2001,1434–1435.

Sastry, M.; Kumar, A.; Datar, S.; Dharmadhikari, C. V.; Ganesh, K. N. DNA-mediated electrostatic assembly of gold nanoparticles into linear arrays by a simple drop-coating procedure.
Appl. Phys. Lett. 2001,78, 2943–2945.

Rana, V. S.; Kumar, V. A.; Ganesh, K. N. Oligonucleotides with (N-thymin-1-ylacetyl)-1-arylserinol backbone: chiral acyclic analogs with restricted conformational flexibility.
Tetrahedron 2001,57, 1311–1321.

Ramakrishnan, V.; Sable, M.; D’Costa, M.; Ganesh, K. N.;Sastry, M. Sequential entrapment of PNA and DNA in lipid bilayers stacks.
Chem. Commun. (Cambridge, U. K.) 2001, 2622–2623.

Pedireddi, V. R.; Ranganathan, A.; Ganesh, K. N. Cyanurate Mimics of Hydrogen-Bonding Patterns of Nucleic Bases: Crystal Structure of a 1:1 Molecular Complex of 9-Ethyladenine and N-Methylcyanuric Acid.
Org. Lett. 2001, 3, 99–102.

Nagamani, D.; Ganesh, K. N. Pyrrolidyl Polyamines: Branched, Chiral Polyamine Analogues That Stabilize DNA Duplexes and Triplexes.
Org. Lett. 2001, 3, 103–106.

Meena, Kumar, V. A.; Ganesh, K. N. Synthesis and evaluation of prolyl carbamate nucleic acids (PrCNA).
Nucleosides, Nucleotides Nucleic Acids 2001, 20, 1193–1196.

Lonkar, P. S.; Kumar, V. A.; Ganesh, K. N. Constrained flexibility in PNA: DNA binding studies with bridgedaminopropylglycyl PNA.
Nucleosides, Nucleotides Nucleic Acids 2001, 20, 1197–1200.

Kumar, V.; Pallan, P. S.; Meena, M.; Ganesh, K. N. Pyrrolidine Nucleic Acids: DNA/PNA Oligomers with 2-Hydroxy/Aminomethyl- 4-(thymin-1-yl)pyrrolidine-N-acetic acid.
Org. Lett. 2001, 3, 1269–1272.

Kumar, V. A.; D’Costa, M.; Ganesh, K. N. Engineering preferences of hairpin PNA binding to complementary DNA: effect of N7G inaeg/aep PNA backbone.
Nucleosides, Nucleotides Nucleic Acids 2001, 20, 1187–1191.

A. Kumar, A.; Pattarkine, M.; Bhadbhade, M.; Mandale, A. B.; Ganesh, K. N.; Datar, S. S.; Dharmadhikari, C. V.; Sastry. M. Linear superclusters of colloidal gold particles byelectrostatic assembly on DNA templates.
Adv. Mater. (Weinheim, Ger.) 2001, 13, 341–344.

D’Costa, M.; Kumar, V.; Ganesh, K. N. Aminoethylprolyl (aep) PNA: Mixed Purine/Pyrimidine Oligomers and Binding Orientation Preferences for PNA:DNA Duplex Formation.
Org. Lett. 2001, 3, 1281–1284.

Damodaran, K.; Sanjayan, G. J.; Rajamohanan, P. R.; Ganapathy, S.; Ganesh, K. N. Solid State NMR of a Molecular Self-Assembly: Multinuclear Approach to the Cyanuric Acid-Melamine System.
Org. Lett. 2001, 3, 1921–1924.

Babu, I. R.; Ganesh, K. N. Enhanced Triple Helix Stability of Collagen Peptides with 4R-Aminoprolyl (Amp) Residues: Relative Roles of Electrostatic and Hydrogen Bonding Effects.
J. Am. Chem. Soc. 2001, 123, 2079–2080.

Sastry, M.; Ramakrishnan, V.; Pattarkine, M.; Gole, A.; Ganesh, K. N. Hybridization of DNA by Sequential Immobilization of Oligonucleotides at the Air-Water Interface.
Langmuir 2000,16, 9142–9146.

 

Sanjayan, G. J.; Pedireddi, V. R.; Ganesh, K. N.Cyanuryl-PNA Monomer: Synthesis and Crystal Structure. Org. Lett. 2000, 2, 2825–2828.

Rao, C. P.; Geetha, K.; Raghavan, M. S. S.; Sreedhara, A.; Tokunaga, K.; Yamaguchi, T.; Jadhav, V.; Ganesh, K. N.; Krishnamoorthy, T.; Ramaiah, K. V. A.; Bhattacharyya, R. K. Transition metal saccharide chemistry and biology: syntheses, characterization, solution stability and putative bio-relevant studies of iron-saccharide complexes.
Inorg. Chim. Acta 2000, 297, 373–382.

Ranganathan, A.; Pedireddi, V. R.; Sanjayan, G.; Ganesh, K. N.; Rao, C. N. R. Sensitive dependence of the hydrogen-bonded assemblies in cyanuric acid-4,4’-bipyridyl adducts on the solvent and the structure of the parent acid.
J. Mol. Struct. 2000, 522, 87–94.

Rana, V. S.; Ganesh, K. N. Recognition of 5-aminouracil (U#) in the central strand of a DNA triplex: orientation selective binding of different third strand bases.
Nucleic Acids Res. 2000, 28, 1162–1169.

Ganesh, K. N.; Nielsen, P. E. Peptide nucleic acids: analogs and derivatives.
Curr. Org. Chem. 2000, 4, 931–943.

Rana, V. S.; Ganesh, K. N. 5-Amino-dU: A Nucleoside Analogue in the Central Strand of DNA Triplex for Orientation Selective Binding of A/G/C/T in the Third Strand.
Org. Lett. 1999, 1, 631–633.

Pattarkine, M. V.; Ganesh, K. N. DNA-Surfactant Interactions: Coupled Cooperativity in Ligand Binding Leads to Duplex Stabilization.
Biochem. Biophys. Res. Commun. 1999,263, 41–46.

Jadhav, V. R.; Barawkar, D. A.; Ganesh, K. N. Polarity Sensing by Fluorescent Oligonucleotides: First Demonstration of Sequence-Dependent Microenvironmental Changes in the DNA Major Groove.
J. Phys. Chem. B 1999, 103, 7383–7385.

Hegde, S. S.; Kumar, A. R.; Ganesh, K. N.; Khan, M. I. Role of arginine in substrate binding and tryptophan microenvironment ofendoxylanase from Chainia sp. (NCL 82-5-1).
J. Biochem., Mol. Biol. Biophys. 1999, 2, 249–258.

Gangamani, B. P.; Kumar, V. A.; Ganesh, K. N. Chiral analogs of peptide nucleic acids: synthesis of 4-aminoprolyl nucleic acids and DNA complementation studies using UV/CD spectroscopy.
Tetrahedron 1999, 55, 177–192.

Gangamani, B. P.; D’Costa, M.; Kumar, V. A.; Ganesh, K. N. Conformationally restrained chiral PNA conjugates: synthesis and DNA complementation studies.
Nucleosides Nucleotides 1999, 18, 1409–1411.

Ganesh, K. N.; Kumar, V. A. Novel DNA and PNA analogs: Selectivity in DNA molecular recognition. in CARB–081 (American Chemical Society, 1999).

Ganesh, K. N. Fifth IUPAC international symposium on bioorganic chemistry (ISBOC-5).
Orient. J. Chem. 1999, 15, 580.

Desai, S. B.; Argade, N. P.; Ganesh, K. N. Selectivity Paradigm in Lipase Reactions: Correlating Actual and Observed Regioselectivity in Hydrolysis of Unsymmetrical Diacetates.
J. Org. Chem. 1999, 64, 8105–8107.

D’Costa, M.; Kumar, V. A.; Ganesh, K. N. Aminoethylprolyl Peptide Nucleic Acids (aepPNA): Chiral PNA Analogues That Form Highly Stable DNA:aepPNA2 Triplexes.
Org. Lett. 1999, 1, 1513–1516.

Bhatia, D.; Yue-Ming, L.; Ganesh, K. N. Steroid-DNAconjugates: improved triplex formation with 5-amido-(7-deoxycholic acid)-dU incorporated oligodeoxyribonucleotides.
Bioorg. Med. Chem. Lett. 1999, 9, 1789–1794.

Rana, V. S.; Kumar, V. A.; Ganesh, K. N. Oligonucleotides with (N-thymin-1-ylacetyl) 1-phenylserinol in backbone: chiral acyclic analogs that form DNA triplexes.
Bioorg. Med. Chem. Lett. 1998, 8, 201.

Krishna, A. G.; Kumar, D. V.; Khan, B. M.;Rawal, S. K.; Ganesh, K. N. Taxol-DNA interactions: fluorescence and CD studies of DNA groove binding properties of taxol.
Biochim.Biophys.Acta, Gen. Subj. 1998, 1381, 104–112.

Jadhav, V. R.; Ganesh, K. N. Oxidative damage of proteins by Cu(II)-desferal complex.
J. Biochem., Mol. Biol. Biophys. 1998, 2, 21–27.

Jadhav, V. R; Ganesh, K. N. Design of a combinatorial oligonucleotide library containing all possible hexamer palindromes: PCR synthesis and application for identifying restriction cleavage sites.
Biochem.Biophys. Res. Commun. 1998, 242, 297–302.

Hegde, S. S.; Kumar, A. R.; Suresh, C. G.; Kotwal, S. M.; Ganesh, K. N.; Khan, M. I. Purification and characterization of an extracellular endo-xylanase from an actinomycete. Chainia sp.
J. Biochem., Mol. Biol. Biophys. 1998, 1, 171–179.

Hegde, S. S.; Kumar, A. R.;Ganesh, K. N.; Swaminathan, C. P.; Khan, M. I. Thermodynamics of ligand (substrate/end product) binding toendoxylanase from Chainia sp. (NCL-82-5-1): isothermal calorimetry and fluorescence titration studies.
Biochim.Biophys.Acta, Protein Struct. Mol. Enzymol. 1998, 1388, 93–100.

Ganesh, K. N.; Kumar, V.; Barawkar, D. A.; Rajeev, K. G.; Rana, V. S. Enhancing DNA triplex stability via nucleobase modifications.
Pure Appl. Chem. 1998, 70, 289–292.

Ganesh, K. N. Chemical regulation of DNA triplex properties: nucleobase and backbone modified novel DNA analogs as structural probes.
Curr.Sci. 1998, 75, 1346–1354.

Desai, S. B.; Ganesh, K. N.; Argade, N. P. Highly efficient chemo- and enantioselective enzymic resolution of (±)-methyl O-acetylmandelates.
Indian J. Chem., Sect. B: Org. Chem. Incl. Med. Chem. 1998, 37B, 918–920.

Chittari, P.; Jadhav, V. R.; Ganesh, K. N.; Rajappa, S. Synthesis and metal complexation of chiral 3-mono- or 3,3-bis-allyl-2-hydroxypyrrolopyrazine-1,4-diones.
J. Chem. Soc., Perkin Trans. 1998, 1 1319–1324.

Rana, V. S.; Kumar, V. A.; Ganesh, K. N. Oligonucleotides with (N-thymin-1-ylacetyl) 1-phenylserinol in backbone: chiral acyclic analogs that form DNA triplexes.
Bioorg. Med. Chem. Lett. 1997, 7, 2837–2842.

Rajeev, K. G.; Sanjayan, G. J.; Ganesh, K. N. Conformationally Restrained Chiral Analogs of Spermine: Chemical Synthesis and Improvements in DNA Triplex Stability.
J. Org. Chem. 1997, 62, 5169–5173.

Rajeev, K. G.; Jadhav, V. R.; Ganesh, K. N. Triplex formation at physiological pH: comparative studies on DNA triplexes containing 5-Me-dC tethered at N4 with spermine and tetraethyleneoxyamine.
Nucleic Acids Res. 1997, 25, 4187–4193.

Jadhav, V. R.; Barawkar, D. A.; Natu, A. A.; Ganesh, K. N. 5-Amido-(carboxyfluorescein)-2’-dU-oligonucleotides: novel primers for fluorescent detection of PCR amplified DNA.
Nucleosides Nucleotides 1997, 16, 107–114.

Gangamani, B. P.; Kumar, V. A.; Ganesh, K. N. Spermine conjugated peptide nucleic acids (spPNA): UV and fluorescence studies of PNA-DNA hybrids with improved stability.
Biochem. Biophys. Res. Commun.1997, 240, 778–782.

Gangamani, B. P.; Kumar, V. A.; Ganesh, K. N. 2-Aminopurine peptide nucleic acids (2-apPNA): intrinsic fluorescent PNA analogs for probing PNA-DNA interaction dynamics.
Chem. Commun. (Cambridge) 1997, 1913–1914.

Ganesh,K. N.; Rajeev, K. G.; Pallan, P. S.; Rana, V. S.; Barawkar, D. A.; Kumar, V. A. Modulation of DNA triplex stability through nucleobase modifications.
Nucleosides Nucleotides 1997, 16, 1271–1278.

Ganesh, K. N.; Kumar, V. A.; Barawkar, D. A.; Rajeev, K. G.; Prakash, T. P.; Pallan, P. S.; Rana, V. S. Stabilization of DNA structures through nucleobase modifications and bisguanidium polyamines.
Indian J. Chem., Sect. B. 1997, 36, 519–524.

Suresh, C. G.; Gangamani, B. P.; Ganesh, K. N. The rare trans-syn thymine photodimers: structures of polyoxyethylene-linked bisthymines and the derived trans-syn thymine photodimers. Comparison of the stereochemistry before and after photodimerization.
Acta Crystallogr., Sect. B: Struct. Sci. 1996, B52, 376–83.

Rana, V. S.; Barawkar, D. A.; Ganesh, K. N. Molecular Recognition of 5-Amino-dU in the Central Strand of a DNA Triplex: Formation of Triads A*U#:A in Parallel and G*U#:A in Antiparallel Motif.
J. Org. Chem. 1996, 61, 3578–3579.

Pallan, P. S.; Ganesh, K. N. DNA triple helix stabilization by bis guanidinyl analogs of biogenic polyamines.
Biochem.Biophys. Res. Commun. 1996, 222, 416–420.

Gangamani, B. P.; Kumar, V. A.; Ganesh, K. N. Synthesis of Nα-(purinyl/pyrimidinyl acetyl)-4-aminoproline diastereomers with potential use in PNA synthesis.
Tetrahedron 1996, 52, 15017–15030.

Ganesh, K. N.; Kumar, V. A.; Barawkar, D. A. Synthetic control of DNA triplex structure through chemical modifications.
Perspect. Supramol.Chem. 1996, 3, 263–327.

Ganesh, K. N. Molecular Level Design of Materials and Functions. Proc. - Indian Acad. Sci., Chem. Sci
. 1996, 108, 513.

Desai, S. B.; Argade, N. P.; Ganesh, K. N. Remarkable Chemo-, Regio-, and Enantioselectivity in Lipase-Catalyzed Hydrolysis: Efficient Resolution of (±)-threo-Ethyl 3-(4-methoxyphenyl)-2,3-diacetoxypropionate Leading to Chiral Intermediates of (+)-Diltiazem.
J. Org. Chem. 1996, 61, 6730–6732.

Barawkar, D. A.; Rajeev, K. G.; Kumar, V. A.; Ganesh, K. N. Triplex formation at physiological pH by 5-Me-dC-N4-(spermine) [X] oligodeoxynucleotides: non-protonation of N3 in X and X*G:C triad and effect of base mismatch/ionic strength on triplex stabilities.
Nucleic Acids Res. 1996, 24, 1229–1237.

Barawkar, D. A.; Ganesh, K. N. Fluorescent d(CGCGAATTCGCG): characterization of major groove polarity and study of minor groove interactions through a major groove semantophore conjugate.
Nucleic Acids Res. 1995, 23, 159–164.

Prakash, T. P.; Kunte, S. S.; Ganesh, K. N. Self-cleavage of C8-histamino-r(UpA) promoted by ZnCl2: mechanistic studies on a designed ribonuclease mimic
. Tetrahedron 1994, 50, 11699–11708.

Prakash, T. P.; Ganesh, K. N. Ribonuclease mimic: Zn2+ promoted cleavage of C8-histamino-r(UpA) proceeds through 2’,3’-cUMP as intermediate.
J. Chem. Soc., Chem. Commun. 1994, 1357–1358.

Prakash, T. P.; Barawkar, D. A.; Kumar, V. A.; Ganesh, K. N. Synthesis of site-specific oligonucleotide-polyamine conjugates. Bioorg. Med. Chem. Lett. 1994, 4, 1733–1738.

Kumar, R. K.; Gunjal, A. D.; Ganesh, K. N. 8-Amino-2’-deoxyadenosine: 2’-deoxythymidine base pairing: identification of novel reverse Hoogsteen mode in solution.
Biochem.Biophys. Res. Commun. 1994, 204, 788–93.

Krishna, A. G.; Balasubramanian, D.; Ganesh, K. N. Sugar-DNA molecular recognition: specific interaction of α-1,4-glucopyranose chains with DNA in the minor groove.
Biochem.Biophys. Res. Commun. 1994, 202, 204–210.

Joshi, R. R.; Likhite, S. M.; Kumar, R. K.; Ganesh, K. N. DNA cleavage by Cu(II)-desferal: identification of C1’-hydroxylation as the initial event for DNA damage.
Biochim.Biophys.Acta, Gen. Subj. 1994, 1199, 285–92.

Joshi, R. R.; Ganesh, K. N. Duplex andtriplex directed DNA cleavage by oligonucleotide-Cu(II)/Co(III) metallodesferal conjugates.
Biochim.Biophys.Acta, Gen. Subj. 1994, 1201, 454–460.

Joshi, R. R.; Ganesh, K. N. Metallodesferals as a new class of DNA cleavers: specificity, mechanism andtargetting of DNA scission reactions.
Proc. - Indian Acad. Sci., Chem. Sci. 1994, 106, 1089–1108.

Gangamani, B. P.; Suresh, C. G.; Ganesh, K. N. Synthesis and X-ray crystal structure of novel trans-syn thymine photodimers: effect of a polyoxyethylene spacer chain on photodimer stereochemistry.
J. Chem. Soc., Chem. Commun. 1994, 2275–2276.


Ganesh, K. N. Frontiers in bioorganic chemistry.
Proc. - Indian Acad. Sci., Chem. Sci. 1994, 106, 913–914.

Barawkar, D. A.; Kumar, V. A.; Ganesh, K. N. Triplex formation at physiological pH by oligonucleotides incorporating 5-Me-dC-(N4-spermine).
Biochem.Biophys. Res. Commun. 1994, 205, 1665–1670.

Barawkar, D. A.; Ganesh, K. N. Exploring DNA minor groove interactions through a probe conjugate inmajor groove: fluorescence studies on netropsin complexation with dU-5-aminodansyl-DNA.
Biochem.Biophys. Res. Commun. 1994, 203, 53–58.

Prakash, T. P.; Kumar, R. K.; Ganesh, K. N. Synthesis and conformational studies of d(TpA) and r(UpA) conjugated with histamine and ethylenediamine.
Tetrahedron 1993, 49, 4035–4050.

Prakash, T. P.; Krishnakumar, R.; Ganesh, K. N. Approaches to nuclease models: synthesis and conformational studies of dTprA conjugated with histamine at C8(A) and ethylenediamine at C5’(T).
Nucleosides Nucleotides 1993, 12, 713–728.

Prakash, T. P.; Ganesh, K. N. 8-Amino(2-aminoethyl)-2’-deoxyadenosine incorporation into DNA by solid phase synthesis.
Bioorg. Med. Chem. Lett. 1993, 3, 689–692.

Barawkar, D. A.; Ganesh, K. N. Solid-phase synthesis of DNA containing 5-NH2-2’-deoxyuridine. Bioorg.
Med. Chem. Lett. 1993, 3, 347–352.

Samuel, A. G.; Mereyala, H. B.; Ganesh, K. N. Synthesis of 6-alkoxy-5-bromo-5,6-dihydropyrimidine nucleosides using dibutyltin oxide-bromine
. Nucleosides Nucleotides 1992, 11, 49–60.

Kumar, V. A.; Gopalakrishnan, V.; Ganesh, K. N. Regioselective allylations of pyrimidine ribonucleosides using palladium(0) catalyst.
Bull. Chem. Soc. Jpn. 1992, 65, 1665–1667.

Joshi, R. R.; Ganesh, K. N. Specific cleavage of DNA at CG sites by cobalt(III) and nickel(II)desferal complexes.
FEBS Lett.1992, 313, 303–306.

Joshi, R. R.; Ganesh, K. N. Chemical cleavage of plasmid DNA by copper(II), nickel(II), and cobalt(III)desferal complexes.
Biochem.Biophys. Res. Commun. 1992, 182, 588–592.

Gopalakrishnan, V.; Kumar, V. A.; Ganesh, K. N. Regioselective 2’/3’-O-allylation of pyrimidine ribonucleosides using phase transfer catalysis.
Nucleosides Nucleotides 1992, 11, 1263–1273.

Barawkar, D. A.; Kumar, R. K.; Ganesh, K. N. Effect of C5-amino substituent on 2’-deoxyuridine base pairing with 2’-deoxyadenosine:  investigation by proton and carbon-13 NMR spectroscopy.
Tetrahedron 1992, 48, 8505–8014.

Gopalakrishnan, V.; Ghadage, R. S.; Ganesh, K. N. Influence of internucleotide phosphate linkage on relative base stacking in 3’-5’ and 2’-5’ RNA:  a circular dichroic spectroscopic study of RNA hexamer AACCUU.
Biochem.Biophys. Res. Commun. 1991, 180, 1251–1257.

Gopalakrishnan, V.; Ganesh, K. N.; Gunjal, A.; Likhite, S. M. Spectroscopic and enzymic characterization of 2’-5’ and 3’-5’ RNA hexamers AACCUU synthesized by phosphotriester approach in solution using 2’-tert-butyldimethysilyl protection.
Tetrahedron 1991, 47, 1075–1090.

Ganesh, K. N.; Prakash, T. P.; Gopalakrishnan, V.; Rajamohanan, P. R. Phosphorus-31 NMR study of amine-ATP complexation and conformational differences between 3’-5’ and 2’-5’ RNA. In Magnetic Resonance Current Trends; Khetrapal, C. L., Govil, G., Eds.; Narosa Publ. House, 1991, pp 156-170.

Singh, D.; Kumar, V. A; Ganesh, K. N. Oligonucleotides, part 5:  synthesis and fluorescence studies of DNA oligomers d(AT)5 containing adenines covalently linked at C-8 with dansyl fluorophore.
Nucleic Acids Res. 1990, 18, 3339–3345.

Rajendrakumar, G. V.; Ganesh, K. N.; Chatterji, D. Interaction of the Mnt repressor with 37-base pair synthetic operator DNA fragments.  Importance of symmetric GC pairs.
J. Biol. Chem. 1990, 265, 22300–22305.

Ganesh, K. N.; Rajendrakumar, G. V. Conformational studies of d(CACGTG)2 and d(CACCGTG).d(CACGGTG) by two-dimensional proton and phosphorus-31 NMR and circular dichroism spectra.
Tetrahedron 1990, 46, 1311–1322.

Gopalakrishnan, V.; Ganesh, K. N. Chemical synthesis of oligonucleotides.  3:  synthesis and characterization of N,O-protected ribophosphoesters for applications in RNA synthesis
. Proc. - Indian Acad. Sci., Chem. Sci. 1989, 101, 401–413.

Rajendrakumar, G. V.; Sivakamisundari, N.; Ganesh, K. N. Rapid chemical synthesis of d(CACGTG) in milligram amounts by solution-phase phosphotriester chemistry.
Proc. - Indian Acad. Sci., Chem. Sci. 1987, 99, 341–350.

Otting, G.; Grütter, R.; Leupin, W.; Minganti, C.; Ganesh, K. N.; Sproat, B. S.; Gait, M. J.; Wüthrich, K. Sequential NMR assignments of labile protons in DNA using two-dimensional nuclear-Overhauser-enhancement spectroscopy with three jump-and-return pulse sequences.
Eur. J. Biochem. 1987, 166, 215-210.