Publications
(* Corresponding author)
2024
48. "Deconvoluting the Conductance of Embedded Circuits in a Single Molecule Bis-Terpyridine Breadboard Junction" Kumar, R., Kaliginedi, V., Venkatramani, R.* Submitted
47. "A Mode Evolution Metric to Extract Converged Reaction Coordinates for Biomolecular Conformational Transitions" Das, M., Venkatramani, R.* Submitted ChemRxiv Link
46. "ATP-Binding Free Energy Simulations Reveal an Allosteric Link Between the Enzyme Active Site and Multiple Functional Protein-Protein Interaction Interfaces in Cyclin Dependent Kinase-1 " Vishwakarma, K., Kolthur-Seetharam, U., Venkatramani, R.* Submitted BioRxiv Link
45. "A Water-soluble, Cell-permeable Mn(II) Sensor Enables Visualization of Manganese Dynamics in Live Mammalian Cells" Kahali, S., Das, S., Kumar, R., Gupta, K., Kundu, R., Bhattacharya, B., Nath, A., Venkatramani, R., Datta, A.* Submitted. ChemRxivLink
2023
44. "A Conceptual Framework for Designing and Analyzing Complex Molecular Circuits" Kumar, R. Seth, C., Kaliginedi, V., Venkatramani, R.* Journal of Material Chemistry C, 11, 14680-14694
43. "Do Quantum Interference Effects Manifest in Acyclic Aliphatic Molecules with Anchoring Groups?" Kumar, R. Seth, C.*, Kaliginedi, V.*, Venkatramani, R.* Nanoscale, 15,15050-15058
42. "Triplet conformation in chromophore-fused cyclooctatetraene dyes" Paul, S. Kitakado, H., Suga, K., Kotani, R., Dey, N., Venkatramani, R., Matito, E, Saito, S., Dasgupta, J.* Journal of Material Chemistry C, 11,12243-12253
2022
41. "Capturing the Polarization Response of Solvated Proteins Under Constant Electric Fields in Molecular Dynamics Simulations" Chakraborty, A., Venkatramani, R.* ChemPhysChem, 24(5), e202200646
2021
40. "Biophysical Properties of the Isolated Spike Protein Binding Helix of Human ACE2" Das, A., Vishvakarma, V., Dey, S., Dey, A., Gupta, A., Das, M., Vishwakarma K. K., Venkatramani, R., Maiti, S.* Biophysical Journal, 120, 2785-2792
39. "Identification of a Copper Ion Recognition Peptide Sequence in the Subunit II of Cytochrome C Oxidase: A Combined Theoretical and Experimental Study " Gupta, D. D., Mandal, I., Nayak, C., Jha, S., Bhattacharyya, D., Venkatramani, R.*, Mazumdar, S.* Journal of Bioinorganic Chemistry, 26, 411-425
38. "Estimating the Directional Flexibility of Proteins from Equilibrium Thermal Fluctuations" Paul, S., Venkatramani, R.* Journal of Chemical Theory and Computation,17, 3103-3118
37. "Role of Ligand Binding Site in Modulating the Mechanical Stability of Proteins with β-Grasp Fold" Gupta, M., Venkatramani, R., Koti, A.S.R* Journal of Physical Chemistry B, 125,4,1009-1019.
2020
36. "Multiscale Modelling Reveals Higher Charge Transport Efficiencies of DNA Relative to RNA Independent of Mechanism" Aggarwal, A., Bag, S., Venkatramani, R., Jain, M., Maity, P. K.* Nanoscale 12, 18750-18760
35. "Transient Raman Snapshots of the Twisted Intramolecular Charge Transfer State in a Stilbazolium Dye" Karmakar, S., Ambastha, A., Jha, A., Dharmadhikari, A., Dharmadhikari, J., Venkatramani, R., Dasgupta, J.* Journal of Physical Chemistry Letters 11, 4842-4848
34. "Variance of Atomic Coordinates as a Dynamical Metric to Distinguish Proteins and Protein-Protein Interactions in Molecular Dynamics Simulations" Paul, S., Koti, A.S.R., Venkatramani, R.* Journal of Physical Chemistry B. 21, 4247-4262
2019
33. "UV-Visible Lysine-Glutamate Dimer Excitations in Protein Charge Transfer Spectra: TDDFT Descriptions using an Optimally Tuned CAM-B3LYP Functional" Mandal, I., Manna, S., Venkatramani, R.* Journal of Physical Chemistry B, 123, 10967-10979
32. "Allosteric regulation of Cyclin-B binding by the charge state of catalytic lysine in CDK1 is essential for cell cycle progression" Deota, S., Rathnachalam, S., Namrata, K., Boob, M., Fulzele, A., Radhika S., Ganguli, S., Balaji, C., Kaypee, S., Vishwakarma, K. K., Kundu, T. K., Bhandari, R., de Peredo, A. G., Mishra, M., Venkatramani, R.*, Kolthur-Seetharam, U.* Journal of Molecular Biology 431, 2127-2142
31. "Ultrafast Photoactivation of C-H Bonds inside Water-Soluble Nanocages" Das, A., Mandal, I., Venkatramani, R., Dasgupta. J.* Science Advances,5 (2), eaav4806
2018
30. "Differences in the mechanical unfolding pathways of apo- and copper-bound azurins" Yadav, A., Paul, S. Venkatramani, R.*, Koti, A.S.R.* Scientific Reports, 8:1989
29. "Optical Backbone-Sidechain Charge Transfer Transitions in Proteins Sensitive to Secondary Structure and Modifications" Mandal, I., Paul, S., Venkatramani, R.* Faraday Discussions, 207, 115-135
28. "Optically Sensing Phospholipid Induced Coil-Helix Transitions in the Phosphoinositide-Binding Motif of Gelsolin" Mondal, S., Chandra, A.,, Venkatramani, R.*, Datta, A.* Faraday Discussions, 207, 437-458
2017
27. "Major Reaction Coordinates Linking Transient Amyloid-β Oligomers to Fibrils Measured at Atomic Level" Chandra, B., Bhowmik, D., Maity, B. K., Mote, K., Dhara, D., Venkatramani, R.*, Maiti, S.*, Madhu, P. K.* Biophysical Journal, 113, 805
26. "Near UV-Visible Electronic Absorption Originating from Charged Amino Acids in a Monomeric Protein" Prasad, S., Mandal, I., Paul, A., Mandal, B., Venkatramani, R.*, Swaminathan, R.* Chemical Science, 8, 5416
2016
25. "Conductance in a Bis-Terpyridine Based Single Molecular Breadboard Circuit" Seth, C., Kaliginedi, V.*, Suravarapu, S., Reber, D., Hong, W., Wandlowski, T., Lafolet, F., Broekmann, P., Royal, G.*, Venkatramani, R.* Chemical. Science, 8, 1576 –1591
2015
24. "The dipeptidyl peptidase IV inhibitors vildagliptin and K-579 inhibit a phospholipase C: a case of promiscuous scaffolds in proteins" Chakraborty, S.*, Rendón-Ramírez, A., Ásgeirsson, B., Dutta, m., Ghosh, A., S., Oda, M., Venkatramani. R., Rao, B., J., Dandekar, A., M., Goñi, F.M. F1000Research, 2, 286 [v3; ref status: indexed, http://f1000r.es/51m]]
2014
23. "Breaking the simple proportionality between molecular conductances and charge transfer rates" Venkatramani, R.*, Wierzbinski, E., Waldeck, D. H.*, and Beratan, D. N.* Faraday Discussions, 174, 57-78
22. "The electrostatic profile of consecutive Cβ atoms applied to protein" Chakraborty, S.*, Venkatramani, R., Rao, B. J., Asgeirsson, B., Dandekar, A. M., F1000Research, 2, 243 [v2; ref status: indexed, http://f1000r.es/2cf ]
21. "pH changes the aggregation propensity of amyloid-β without altering the monomer conformation" Bhowmik, D., Maclaughlin, C.M., Chandrakesan, M., Ramesh, P., Venkatramani, R., Walker, G.C., Maiti, S.* Physical Chemistry Chemical Physics, 16, 885
2013
20. "Protein structure quality assessment based on the distance profiles of consecutive backbone Cα atoms" Chakraborty, S.*, Venkatramani, R., Rao, B. J., Asgeirsson, B., Dandekar, A. M., F1000Research, 2, 211 [v3; ref status: indexed http://f1000r.es/2kg]
19. "The single-molecule conductance and electrochemical electron-transfer rate are related by a power law" Wierzbinski, E., Venkatramani, R., Davis, K.L., Bezer, S., Kong, J., Xing, Y., Borguet, E., Achim, C.*, Beratan, D.N.*, and Waldeck, D. H.* ACS Nano, 7, 5391
2012
18. "The Effect of Backbone Flexibility on Charge Transfer Rates in Peptide Nucleic Acid Duplexes" Wierzbinski, E.; De Leon, A.; Yin, X.; Balaeff, A.; Davis, K.; Rapireddy, S.; Venkatramani, R.; Keinan, S.; Ly, D.; Madrid, M.; Beratan, D.*; Achim, C.*, and Waldeck, D. H.* Journal of the American Chemical Society, 134, 9335–9342
2011
17. "Computational Methods Related to Reaction Chemistry" Shih, A. J., Telesco, S. E., Liu, Y., Venkatramani, R. and Radhakrishnan, R.*, Comprehensive Biomaterials, eds. P. Ducheyne, Elsevier London, 3, 155.
16."Nucleic Acid Charge Transfer: Black, White and Gray" Venkatramani, R., Keinan, S., Balaeff, A. and Beratan, D. N.* Coordination Chemistry Reviews, 255, 635
15."Evidence for a Near-Resonant Charge Transport Mechanism for Double-Stranded Peptide Nucleic Acid" Venkatramani, R.**, Davis, K.**, Bezer, S., Kocsis, L., Wierzbinski, E., Balaeff, A., Keinan, S., Beratan, D. N.*, Achim, C.* and Waldeck, D. H.*, Journal of the American Chemical Society, 133, 62. (** authors contributed equally)
2010
14. "Is MD Geometry Sampling Sufficient for Nucleobase Electronic Structure Analysis of ET Reactions? Comparing Classical MD and QM/MM Methods" Keinan, S., Venkatramani, R., Balaeff, A. and Beratan, D. N.* Journal of Physical Chemistry C. 114, 20496
13. "Optimizing Single Molecule Conductivity of Conjugated Organic Oligomers with Carbodithioate Linkers" Xing, Y., Park, T-H., Venkatramani, R., Keinan, S., Beratan, D. N.*, Therien, M. J.* and Borguet E.*, Journal of the American Chemical Society, 132, 7038
12. "Computational Delineation of the Catalytic Step of a High-Fidelity DNA Polymerase" Venkatramani, R. and Radhakrishnan, R.* Protein Science. 19, 815 (Cover article)
2009
11. "Photoconductivity and Current-Voltage Characteristics in Thin DNA Films: Experiments and Modeling" Venkatramani, R., Zang, D. Y., Oh, C., Grote, J. and Beratan, D. N.* Proceedings of SPIE, 7403, 74030B
10. "Steering Electrons on Moving Pathways" Beratan, D. N.*, Skourtis, S. S.*, Balabin, I. A., Balaeff, A., Keinan, S., Venkatramani, R. and Xiao, D. Accounts of Chemical Research. 42,1669
9. "Role of Nucleobase Energetics and Nucleobase Interactions in Single-Stranded Peptide Nucleic Acid Charge Transfer", Paul, A., Bezer, S., Venkatramani, R., Kocsis, L., Wierzbinski, E., Balaeff, A., Keinan, S., Beratan, D. N.*, Achim, C.* and Waldeck, D. H.* Journal of the American Chemical Society 131, 6498
2008
8. "PNA versus DNA: Effects of Structural Fluctuations on Electronic Structure and Hole-Transport Mechanisms", Hatcher, E., Balaeff, A., Keinan, S., Venkatramani, R. and Beratan, D. N.* Journal of the American Chemical Society 130, 11752
7. "Computational Study of the Force Dependence of Phosphoryl Transfer during DNA Synthesis by a High Fidelity Polymerase" Venkatramani R. and Radhakrishnan R.* Physical Review Letters 100, 088102. (Showcased in the Virtual Journal of Biological Physics research: vol 15, issue 5, March 1, 2008)
6. "Effect of Oxidatively Damaged DNA on the Active Site Preorganization during Nucleotide Incorporation in a High Fidelity Polymerase from Bacillus Stearothermophilus" Venkatramani, R. and Radhakrishnan, R.* Proteins-Structure Function and Bioinformatics 71, 1360
2005
5. "Dephasing-induced Vibronic Resonances in Difference Frequency Generation Spectroscopy" Venkatramani, R. and Mukamel, S.* Journal of Physical Chemistry B, 109, 8132
2003
4. "Intramolecular and Solvent Contributions to Amide-I Vibrational Echo Lineshapes of a Cyclic Dipeptide" Venkatramani, R., Jansen, T. l. C., Dreyer, J. and Mukamel, S.* Time resolved vibrational spectroscopy : Proceedings of the XI TRVS International Conference, Castiglione della Pescaia, 275
3. "Multidimensional Nonlinear Spectroscopy of Conformational Relaxation in Azobenzene" Venkatramani, R., Hayashi, T. and Mukamel, S.* Ultrafast Phenomena XIII, Miller, R. J. D., Murnane, M. M., Scherer, N. F. and Wiener, A. M. Editors (Springer-Verlag, Berlin) 619
2. "Correlated Line Broadening in Three Pulse Multidimensional Spectroscopy of Coupled Vibrations" Venkatramani, R. and Mukamel, S.* Ultrafast Phenomena XIII, Miller, R. J. D., Murnane, M. M., Scherer, N. F. and Wiener, A. M. Editors (Springer-Verlag, Berlin) 565
2002
1. "Correlated Line Broadening in Multidimensional Vibrational Spectroscopy" Venkatramani, R. and Mukamel, S.* Journal of Chemical Physics.,117, 11089
2024
48. "Deconvoluting the Conductance of Embedded Circuits in a Single Molecule Bis-Terpyridine Breadboard Junction" Kumar, R., Kaliginedi, V., Venkatramani, R.* Submitted
47. "A Mode Evolution Metric to Extract Converged Reaction Coordinates for Biomolecular Conformational Transitions" Das, M., Venkatramani, R.* Submitted ChemRxiv Link
46. "ATP-Binding Free Energy Simulations Reveal an Allosteric Link Between the Enzyme Active Site and Multiple Functional Protein-Protein Interaction Interfaces in Cyclin Dependent Kinase-1 " Vishwakarma, K., Kolthur-Seetharam, U., Venkatramani, R.* Submitted BioRxiv Link
45. "A Water-soluble, Cell-permeable Mn(II) Sensor Enables Visualization of Manganese Dynamics in Live Mammalian Cells" Kahali, S., Das, S., Kumar, R., Gupta, K., Kundu, R., Bhattacharya, B., Nath, A., Venkatramani, R., Datta, A.* Submitted. ChemRxivLink
2023
44. "A Conceptual Framework for Designing and Analyzing Complex Molecular Circuits" Kumar, R. Seth, C., Kaliginedi, V., Venkatramani, R.* Journal of Material Chemistry C, 11, 14680-14694
43. "Do Quantum Interference Effects Manifest in Acyclic Aliphatic Molecules with Anchoring Groups?" Kumar, R. Seth, C.*, Kaliginedi, V.*, Venkatramani, R.* Nanoscale, 15,15050-15058
42. "Triplet conformation in chromophore-fused cyclooctatetraene dyes" Paul, S. Kitakado, H., Suga, K., Kotani, R., Dey, N., Venkatramani, R., Matito, E, Saito, S., Dasgupta, J.* Journal of Material Chemistry C, 11,12243-12253
2022
41. "Capturing the Polarization Response of Solvated Proteins Under Constant Electric Fields in Molecular Dynamics Simulations" Chakraborty, A., Venkatramani, R.* ChemPhysChem, 24(5), e202200646
2021
40. "Biophysical Properties of the Isolated Spike Protein Binding Helix of Human ACE2" Das, A., Vishvakarma, V., Dey, S., Dey, A., Gupta, A., Das, M., Vishwakarma K. K., Venkatramani, R., Maiti, S.* Biophysical Journal, 120, 2785-2792
39. "Identification of a Copper Ion Recognition Peptide Sequence in the Subunit II of Cytochrome C Oxidase: A Combined Theoretical and Experimental Study " Gupta, D. D., Mandal, I., Nayak, C., Jha, S., Bhattacharyya, D., Venkatramani, R.*, Mazumdar, S.* Journal of Bioinorganic Chemistry, 26, 411-425
38. "Estimating the Directional Flexibility of Proteins from Equilibrium Thermal Fluctuations" Paul, S., Venkatramani, R.* Journal of Chemical Theory and Computation,17, 3103-3118
37. "Role of Ligand Binding Site in Modulating the Mechanical Stability of Proteins with β-Grasp Fold" Gupta, M., Venkatramani, R., Koti, A.S.R* Journal of Physical Chemistry B, 125,4,1009-1019.
2020
36. "Multiscale Modelling Reveals Higher Charge Transport Efficiencies of DNA Relative to RNA Independent of Mechanism" Aggarwal, A., Bag, S., Venkatramani, R., Jain, M., Maity, P. K.* Nanoscale 12, 18750-18760
35. "Transient Raman Snapshots of the Twisted Intramolecular Charge Transfer State in a Stilbazolium Dye" Karmakar, S., Ambastha, A., Jha, A., Dharmadhikari, A., Dharmadhikari, J., Venkatramani, R., Dasgupta, J.* Journal of Physical Chemistry Letters 11, 4842-4848
34. "Variance of Atomic Coordinates as a Dynamical Metric to Distinguish Proteins and Protein-Protein Interactions in Molecular Dynamics Simulations" Paul, S., Koti, A.S.R., Venkatramani, R.* Journal of Physical Chemistry B. 21, 4247-4262
2019
33. "UV-Visible Lysine-Glutamate Dimer Excitations in Protein Charge Transfer Spectra: TDDFT Descriptions using an Optimally Tuned CAM-B3LYP Functional" Mandal, I., Manna, S., Venkatramani, R.* Journal of Physical Chemistry B, 123, 10967-10979
32. "Allosteric regulation of Cyclin-B binding by the charge state of catalytic lysine in CDK1 is essential for cell cycle progression" Deota, S., Rathnachalam, S., Namrata, K., Boob, M., Fulzele, A., Radhika S., Ganguli, S., Balaji, C., Kaypee, S., Vishwakarma, K. K., Kundu, T. K., Bhandari, R., de Peredo, A. G., Mishra, M., Venkatramani, R.*, Kolthur-Seetharam, U.* Journal of Molecular Biology 431, 2127-2142
31. "Ultrafast Photoactivation of C-H Bonds inside Water-Soluble Nanocages" Das, A., Mandal, I., Venkatramani, R., Dasgupta. J.* Science Advances,5 (2), eaav4806
2018
30. "Differences in the mechanical unfolding pathways of apo- and copper-bound azurins" Yadav, A., Paul, S. Venkatramani, R.*, Koti, A.S.R.* Scientific Reports, 8:1989
29. "Optical Backbone-Sidechain Charge Transfer Transitions in Proteins Sensitive to Secondary Structure and Modifications" Mandal, I., Paul, S., Venkatramani, R.* Faraday Discussions, 207, 115-135
28. "Optically Sensing Phospholipid Induced Coil-Helix Transitions in the Phosphoinositide-Binding Motif of Gelsolin" Mondal, S., Chandra, A.,, Venkatramani, R.*, Datta, A.* Faraday Discussions, 207, 437-458
2017
27. "Major Reaction Coordinates Linking Transient Amyloid-β Oligomers to Fibrils Measured at Atomic Level" Chandra, B., Bhowmik, D., Maity, B. K., Mote, K., Dhara, D., Venkatramani, R.*, Maiti, S.*, Madhu, P. K.* Biophysical Journal, 113, 805
26. "Near UV-Visible Electronic Absorption Originating from Charged Amino Acids in a Monomeric Protein" Prasad, S., Mandal, I., Paul, A., Mandal, B., Venkatramani, R.*, Swaminathan, R.* Chemical Science, 8, 5416
2016
25. "Conductance in a Bis-Terpyridine Based Single Molecular Breadboard Circuit" Seth, C., Kaliginedi, V.*, Suravarapu, S., Reber, D., Hong, W., Wandlowski, T., Lafolet, F., Broekmann, P., Royal, G.*, Venkatramani, R.* Chemical. Science, 8, 1576 –1591
2015
24. "The dipeptidyl peptidase IV inhibitors vildagliptin and K-579 inhibit a phospholipase C: a case of promiscuous scaffolds in proteins" Chakraborty, S.*, Rendón-Ramírez, A., Ásgeirsson, B., Dutta, m., Ghosh, A., S., Oda, M., Venkatramani. R., Rao, B., J., Dandekar, A., M., Goñi, F.M. F1000Research, 2, 286 [v3; ref status: indexed, http://f1000r.es/51m]]
2014
23. "Breaking the simple proportionality between molecular conductances and charge transfer rates" Venkatramani, R.*, Wierzbinski, E., Waldeck, D. H.*, and Beratan, D. N.* Faraday Discussions, 174, 57-78
22. "The electrostatic profile of consecutive Cβ atoms applied to protein" Chakraborty, S.*, Venkatramani, R., Rao, B. J., Asgeirsson, B., Dandekar, A. M., F1000Research, 2, 243 [v2; ref status: indexed, http://f1000r.es/2cf ]
21. "pH changes the aggregation propensity of amyloid-β without altering the monomer conformation" Bhowmik, D., Maclaughlin, C.M., Chandrakesan, M., Ramesh, P., Venkatramani, R., Walker, G.C., Maiti, S.* Physical Chemistry Chemical Physics, 16, 885
2013
20. "Protein structure quality assessment based on the distance profiles of consecutive backbone Cα atoms" Chakraborty, S.*, Venkatramani, R., Rao, B. J., Asgeirsson, B., Dandekar, A. M., F1000Research, 2, 211 [v3; ref status: indexed http://f1000r.es/2kg]
19. "The single-molecule conductance and electrochemical electron-transfer rate are related by a power law" Wierzbinski, E., Venkatramani, R., Davis, K.L., Bezer, S., Kong, J., Xing, Y., Borguet, E., Achim, C.*, Beratan, D.N.*, and Waldeck, D. H.* ACS Nano, 7, 5391
2012
18. "The Effect of Backbone Flexibility on Charge Transfer Rates in Peptide Nucleic Acid Duplexes" Wierzbinski, E.; De Leon, A.; Yin, X.; Balaeff, A.; Davis, K.; Rapireddy, S.; Venkatramani, R.; Keinan, S.; Ly, D.; Madrid, M.; Beratan, D.*; Achim, C.*, and Waldeck, D. H.* Journal of the American Chemical Society, 134, 9335–9342
2011
17. "Computational Methods Related to Reaction Chemistry" Shih, A. J., Telesco, S. E., Liu, Y., Venkatramani, R. and Radhakrishnan, R.*, Comprehensive Biomaterials, eds. P. Ducheyne, Elsevier London, 3, 155.
16."Nucleic Acid Charge Transfer: Black, White and Gray" Venkatramani, R., Keinan, S., Balaeff, A. and Beratan, D. N.* Coordination Chemistry Reviews, 255, 635
15."Evidence for a Near-Resonant Charge Transport Mechanism for Double-Stranded Peptide Nucleic Acid" Venkatramani, R.**, Davis, K.**, Bezer, S., Kocsis, L., Wierzbinski, E., Balaeff, A., Keinan, S., Beratan, D. N.*, Achim, C.* and Waldeck, D. H.*, Journal of the American Chemical Society, 133, 62. (** authors contributed equally)
2010
14. "Is MD Geometry Sampling Sufficient for Nucleobase Electronic Structure Analysis of ET Reactions? Comparing Classical MD and QM/MM Methods" Keinan, S., Venkatramani, R., Balaeff, A. and Beratan, D. N.* Journal of Physical Chemistry C. 114, 20496
13. "Optimizing Single Molecule Conductivity of Conjugated Organic Oligomers with Carbodithioate Linkers" Xing, Y., Park, T-H., Venkatramani, R., Keinan, S., Beratan, D. N.*, Therien, M. J.* and Borguet E.*, Journal of the American Chemical Society, 132, 7038
12. "Computational Delineation of the Catalytic Step of a High-Fidelity DNA Polymerase" Venkatramani, R. and Radhakrishnan, R.* Protein Science. 19, 815 (Cover article)
2009
11. "Photoconductivity and Current-Voltage Characteristics in Thin DNA Films: Experiments and Modeling" Venkatramani, R., Zang, D. Y., Oh, C., Grote, J. and Beratan, D. N.* Proceedings of SPIE, 7403, 74030B
10. "Steering Electrons on Moving Pathways" Beratan, D. N.*, Skourtis, S. S.*, Balabin, I. A., Balaeff, A., Keinan, S., Venkatramani, R. and Xiao, D. Accounts of Chemical Research. 42,1669
9. "Role of Nucleobase Energetics and Nucleobase Interactions in Single-Stranded Peptide Nucleic Acid Charge Transfer", Paul, A., Bezer, S., Venkatramani, R., Kocsis, L., Wierzbinski, E., Balaeff, A., Keinan, S., Beratan, D. N.*, Achim, C.* and Waldeck, D. H.* Journal of the American Chemical Society 131, 6498
2008
8. "PNA versus DNA: Effects of Structural Fluctuations on Electronic Structure and Hole-Transport Mechanisms", Hatcher, E., Balaeff, A., Keinan, S., Venkatramani, R. and Beratan, D. N.* Journal of the American Chemical Society 130, 11752
7. "Computational Study of the Force Dependence of Phosphoryl Transfer during DNA Synthesis by a High Fidelity Polymerase" Venkatramani R. and Radhakrishnan R.* Physical Review Letters 100, 088102. (Showcased in the Virtual Journal of Biological Physics research: vol 15, issue 5, March 1, 2008)
6. "Effect of Oxidatively Damaged DNA on the Active Site Preorganization during Nucleotide Incorporation in a High Fidelity Polymerase from Bacillus Stearothermophilus" Venkatramani, R. and Radhakrishnan, R.* Proteins-Structure Function and Bioinformatics 71, 1360
2005
5. "Dephasing-induced Vibronic Resonances in Difference Frequency Generation Spectroscopy" Venkatramani, R. and Mukamel, S.* Journal of Physical Chemistry B, 109, 8132
2003
4. "Intramolecular and Solvent Contributions to Amide-I Vibrational Echo Lineshapes of a Cyclic Dipeptide" Venkatramani, R., Jansen, T. l. C., Dreyer, J. and Mukamel, S.* Time resolved vibrational spectroscopy : Proceedings of the XI TRVS International Conference, Castiglione della Pescaia, 275
3. "Multidimensional Nonlinear Spectroscopy of Conformational Relaxation in Azobenzene" Venkatramani, R., Hayashi, T. and Mukamel, S.* Ultrafast Phenomena XIII, Miller, R. J. D., Murnane, M. M., Scherer, N. F. and Wiener, A. M. Editors (Springer-Verlag, Berlin) 619
2. "Correlated Line Broadening in Three Pulse Multidimensional Spectroscopy of Coupled Vibrations" Venkatramani, R. and Mukamel, S.* Ultrafast Phenomena XIII, Miller, R. J. D., Murnane, M. M., Scherer, N. F. and Wiener, A. M. Editors (Springer-Verlag, Berlin) 565
2002
1. "Correlated Line Broadening in Multidimensional Vibrational Spectroscopy" Venkatramani, R. and Mukamel, S.* Journal of Chemical Physics.,117, 11089