Andrei Tokmakoff

Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 49

Top Topics

Molecular Dynamics

Energy Transfer

Top Venues

The journal of physical chemistry. B

Journal of the American Chemical Society

bioRxiv : the preprint server for biology

The journal of physical chemistry letters

This page only lists publications with an associated author ORCID identifier.

Publications

Yaxin Chen, Xinyou Ma, John H Hack, Shuhao Zhang, Anyang Peng, James P Dombrowski, Gregory A Voth, Andrei Tokmakoff, Mayfair C Kung, Harold H Kung
Molecular Tuning of Reactivity of Zeolite Protons in HZSM-5. Journal of the American Chemical Society (2024)
John H Hack, Nicholas H C Lewis, Samuel Knight, William B Carpenter, Luigi De Marco, Krupa Ramasesha, Andrei Tokmakoff
Generation and Implementation of Continuum Infrared Pulses for Broadband Detection in 2D IR Spectroscopy. The journal of physical chemistry. A (2024)
John H Hack, Nicholas H C Lewis, Samuel Knight, William B Carpenter, Luigi De Marco, Krupa Ramasesha, Andrei Tokmakoff
Generation and Implementation of Continuum Infrared Pulses for Broadband Detection in 2D IR Spectroscopy. The journal of physical chemistry. A 128 (24) (2024)
Yaxin Chen, Xinyou Ma, John H Hack, Shuhao Zhang, Anyang Peng, James P Dombrowski, Gregory A Voth, Andrei Tokmakoff, Mayfair C Kung, Harold H Kung
Molecular Tuning of Reactivity of Zeolite Protons in HZSM-5. Journal of the American Chemical Society 146 (15) (2024)
John H Hack, Yaxin Chen, Nicholas H C Lewis, Harold H Kung, Andrei Tokmakoff
Strong H-bonding from Zeolite Bro̷nsted Acid Site to Water: Origin of the Broad IR Doublet. The journal of physical chemistry. B 127 (51) (2023)
Brennan Ashwood, Michael S Jones, Yumin Lee, Joseph R Sachleben, Andrew L Ferguson, Andrei Tokmakoff
Molecular insight into how the position of an abasic site and its sequence environment influence DNA duplex stability and dynamics. bioRxiv : the preprint server for biology (2023)
Melissa Bodine, Vepa Rozyyev, Jeffrey W Elam, Andrei Tokmakoff, Nicholas H C Lewis
Development and Characterization of Electrodes for Surface-Specific Attenuated Total Reflection Two-Dimensional Infrared Spectroelectrochemistry. The journal of physical chemistry. C, Nanomaterials and interfaces 127 (48) (2023)
Brennan Ashwood, Michael S Jones, Aleksandar Radakovic, Smayan Khanna, Yumin Lee, Joseph R Sachleben, Jack W Szostak, Andrew L Ferguson, Andrei Tokmakoff
Direct monitoring of the thermodynamics and kinetics of DNA and RNA dinucleotide dehybridization from gaps and overhangs. bioRxiv : the preprint server for biology (2023)
John H Hack, Yaxin Chen, Nicholas H C Lewis, Harold H Kung, Andrei Tokmakoff
Strong H-bonding from Zeolite Bro̷nsted Acid Site to Water: Origin of the Broad IR Doublet. The journal of physical chemistry. B (2023)
Ram C Itani, Max Moncada Cohen, Andrei Tokmakoff
Infrared compatible rapid mixer to probe millisecond chemical kinetics. The Review of scientific instruments 94 (3) (2023)
Brennan Ashwood, Michael S Jones, Aleksandar Radakovic, Smayan Khanna, Yumin Lee, Joseph R Sachleben, Jack W Szostak, Andrew L Ferguson, Andrei Tokmakoff
Direct monitoring of the thermodynamics and kinetics of DNA and RNA dinucleotide dehybridization from gaps and overhangs. bioRxiv : the preprint server for biology (2023)
Melissa Bodine, Vepa Rozyyev, Jeffrey W Elam, Andrei Tokmakoff, Nicholas H C Lewis
Vibrational Probe at the Electrochemical Interface: Dependence on Plasmon Coupling and Potential of the Lineshape in Two-Dimensional Infrared Spectroscopy. The journal of physical chemistry letters (2023)
Brennan Ashwood, Michael S Jones, Aleksandar Radakovic, Smayan Khanna, Yumin Lee, Joseph R Sachleben, Jack W Szostak, Andrew L Ferguson, Andrei Tokmakoff
Direct monitoring of the thermodynamics and kinetics of DNA and RNA dinucleotide dehybridization from gaps and overhangs. bioRxiv : the preprint server for biology (2023)
Brennan Ashwood, Michael S Jones, Aleksandar Radakovic, Smayan Khanna, Yumin Lee, Joseph R Sachleben, Jack W Szostak, Andrew L Ferguson, Andrei Tokmakoff
Direct monitoring of the thermodynamics and kinetics of DNA and RNA dinucleotide dehybridization from gaps and overhangs. bioRxiv : the preprint server for biology (2023)
Lukas Whaley-Mayda, Abhirup Guha, Andrei Tokmakoff
Resonance conditions, detection quality, and single-molecule sensitivity in fluorescence-encoded infrared vibrational spectroscopy. The Journal of chemical physics 156 (17) (2022)
Yong Zhang, Nicholas H C Lewis, Julian Mars, Gang Wan, Nicholas J Weadock, Christopher J Takacs, Maria R Lukatskaya, Hans-Georg Steinrück, Michael F Toney, Andrei Tokmakoff, Edward J Maginn
Correction to "Water-in-Salt LiTFSI Aqueous Electrolytes. 1. Liquid Structure from Combined Molecular Dynamics Simulation and Experimental Studies". The journal of physical chemistry. B 126 (16) (2022)
Nicholas H C Lewis, Bogdan Dereka, Yong Zhang, Edward J Maginn, Andrei Tokmakoff
From Networked to Isolated: Observing Water Hydrogen Bonds in Concentrated Electrolytes with Two-Dimensional Infrared Spectroscopy. The journal of physical chemistry. B 126 (28) (2022)
Bogdan Dereka, Nicholas H C Lewis, Yong Zhang, Nathan T Hahn, Jonathan H Keim, Scott A Snyder, Edward J Maginn, Andrei Tokmakoff
Exchange-Mediated Transport in Battery Electrolytes: Ultrafast or Ultraslow? Journal of the American Chemical Society 144 (19) (2022)
Bogdan Dereka, Qi Yu, Nicholas H C Lewis, William B Carpenter, Joel M Bowman, Andrei Tokmakoff
Crossover from hydrogen to chemical bonding. Science (New York, N.Y.) 371 (6525) (2021)
Nicholas H C Lewis, Andrei Tokmakoff
Lineshape Distortions in Internal Reflection Two-Dimensional Infrared Spectroscopy: Tuning across the Critical Angle. The journal of physical chemistry letters (2021)
Bogdan Dereka, Nicholas H C Lewis, Jonathan H Keim, Scott A Snyder, Andrei Tokmakoff
Characterization of Acetonitrile Isotopologues as Vibrational Probes of Electrolytes. The journal of physical chemistry. B 126 (1) (2021)
Lukas Whaley-Mayda, Abhirup Guha, Samuel B Penwell, Andrei Tokmakoff
Fluorescence-Encoded Infrared Vibrational Spectroscopy with Single-Molecule Sensitivity. Journal of the American Chemical Society 143 (8) (2021)
Ryan J Menssen, Gregory J Kimmel, Andrei Tokmakoff
Investigation into the mechanism and dynamics of DNA association and dissociation utilizing kinetic Monte Carlo simulations. The Journal of chemical physics 154 (4) (2021)
John H Hack, James P Dombrowski, Xinyou Ma, Yaxin Chen, Nicholas H C Lewis, William B Carpenter, Chenghan Li, Gregory A Voth, Harold H Kung, Andrei Tokmakoff
Structural Characterization of Protonated Water Clusters Confined in HZSM-5 Zeolites. Journal of the American Chemical Society 143 (27) (2021)
Edward Barry, Raelyn Burns, Wei Chen, Guilhem X De Hoe, Joan Manuel Montes De Oca, Juan J de Pablo, James Dombrowski, Jeffrey W Elam, Alanna M Felts, Giulia Galli, John H Hack, Qiming He, Xiang He, Eli Hoenig, Aysenur Iscen, Benjamin Kash, Harold H Kung, Nicholas H C Lewis, Chong Liu, Xinyou Ma, Anil Mane, Alex B F Martinson, Karen L Mulfort, Julia Murphy, Kristian Speranza Mølhave, Paul F Nealey, Yijun Qiao, Vepa Rozyyev, George C Schatz, Steven J Sibener, Dmitri V Talapin, David M Tiede, Matthew V Tirrell, Andrei Tokmakoff, Gregory A Voth, Zhongyang Wang, Zifan Ye, Murat Nulati Yesibolati, Nestor J Zaluzec, Seth B Darling
Advanced Materials for Energy-Water Systems: The Central Role of Water/Solid Interfaces in Adsorption, Reactivity, and Transport. Chemical reviews 121 (15) (2021)
Yong Zhang, Nicholas H C Lewis, Julian Mars, Gang Wan, Nicholas J Weadock, Christopher J Takacs, Maria R Lukatskaya, Hans-Georg Steinrück, Michael F Toney, Andrei Tokmakoff, Edward J Maginn
Water-in-Salt LiTFSI Aqueous Electrolytes. 1. Liquid Structure from Combined Molecular Dynamics Simulation and Experimental Studies. The journal of physical chemistry. B 125 (17) (2021)
Carlos R Baiz, Bartosz Błasiak, Jens Bredenbeck, Minhaeng Cho, Jun-Ho Choi, Steven A Corcelli, Arend G Dijkstra, Chi-Jui Feng, Sean Garrett-Roe, Nien-Hui Ge, Magnus W D Hanson-Heine, Jonathan D Hirst, Thomas la Cour Jansen, Kijeong Kwac, Kevin J Kubarych, Casey H Londergan, Hiroaki Maekawa, Mike Reppert, Shinji Saito, Santanu Roy, James L Skinner, Gerhard Stock, John E Straub, Megan C Thielges, Keisuke Tominaga, Andrei Tokmakoff, Hajime Torii, Lu Wang, Lauren J Webb, Martin T Zanni
Correction to Vibrational Spectroscopic Map, Vibrational Spectroscopy, and Intermolecular Interaction. Chemical reviews 121 (21) (2021)
Michael S Jones, Brennan Ashwood, Andrei Tokmakoff, Andrew L Ferguson
Determining Sequence-Dependent DNA Oligonucleotide Hybridization and Dehybridization Mechanisms Using Coarse-Grained Molecular Simulation, Markov State Models, and Infrared Spectroscopy. Journal of the American Chemical Society 143 (42) (2021)
Luis Busto-Moner, Chi-Jui Feng, Adam Antoszewski, Andrei Tokmakoff, Aaron R Dinner
Structural Ensemble of the Insulin Monomer. Biochemistry 60 (42) (2021)
Chi-Jui Feng, Anton V Sinitskiy, Vijay Pande, Andrei Tokmakoff
Computational IR Spectroscopy of Insulin Dimer Structure and Conformational Heterogeneity. The journal of physical chemistry. B 125 (18) (2021)
Xin-Xing Zhang, Shelby L Brantley, Steven A Corcelli, Andrei Tokmakoff
DNA minor-groove binder Hoechst 33258 destabilizes base-pairing adjacent to its binding site. Communications biology 3 (1) (2020)
Nicholas H C Lewis, Aysenur Iscen, Alanna Felts, Bogdan Dereka, George C Schatz, Andrei Tokmakoff
Vibrational Probe of Aqueous Electrolytes: The Field Is Not Enough. The journal of physical chemistry. B 124 (32) (2020)
Brennan Ashwood, Nicholas H C Lewis, Paul J Sanstead, Andrei Tokmakoff
Temperature-Jump 2D IR Spectroscopy with Intensity-Modulated CW Optical Heating. The journal of physical chemistry. B 124 (39) (2020)
Paul J Sanstead, Brennan Ashwood, Qing Dai, Chuan He, Andrei Tokmakoff
Oxidized Derivatives of 5-Methylcytosine Alter the Stability and Dehybridization Dynamics of Duplex DNA. The journal of physical chemistry. B 124 (7) (2020)
Brennan Ashwood, Paul J Sanstead, Qing Dai, Chuan He, Andrei Tokmakoff
5-Carboxylcytosine and Cytosine Protonation Distinctly Alter the Stability and Dehybridization Dynamics of the DNA Duplex. The journal of physical chemistry. B 124 (4) (2020)
Adam Antoszewski, Chi-Jui Feng, Bodhi P Vani, Erik H Thiede, Lu Hong, Jonathan Weare, Andrei Tokmakoff, Aaron R Dinner
Insulin Dissociates by Diverse Mechanisms of Coupled Unfolding and Unbinding. The journal of physical chemistry. B 124 (27) (2020)
Xin-Xing Zhang, Andrei Tokmakoff
Revealing the Dynamical Role of Co-solvents in the Coupled Folding and Dimerization of Insulin. The journal of physical chemistry letters 11 (11) (2020)
Carlos R Baiz, Bartosz Błasiak, Jens Bredenbeck, Minhaeng Cho, Jun-Ho Choi, Steven A Corcelli, Arend G Dijkstra, Chi-Jui Feng, Sean Garrett-Roe, Nien-Hui Ge, Magnus W D Hanson-Heine, Jonathan D Hirst, Thomas la Cour Jansen, Kijeong Kwac, Kevin J Kubarych, Casey H Londergan, Hiroaki Maekawa, Mike Reppert, Shinji Saito, Santanu Roy, James L Skinner, Gerhard Stock, John E Straub, Megan C Thielges, Keisuke Tominaga, Andrei Tokmakoff, Hajime Torii, Lu Wang, Lauren J Webb, Martin T Zanni
Vibrational Spectroscopic Map, Vibrational Spectroscopy, and Intermolecular Interaction. Chemical reviews 120 (15) (2020)
Paul J Sanstead, Andrei Tokmakoff
A lattice model for the interpretation of oligonucleotide hybridization experiments. The Journal of chemical physics 150 (18) (2019)
Ryan J Menssen, Andrei Tokmakoff
Correction to "Length-Dependent Melting Kinetics of Short DNA Oligonucleotides Using Temperature-Jump IR Spectroscopy". The journal of physical chemistry. B 123 (10) (2019)
Qi Yu, William B Carpenter, Nicholas H C Lewis, Andrei Tokmakoff, Joel M Bowman
High-Level VSCF/VCI Calculations Decode the Vibrational Spectrum of the Aqueous Proton. The journal of physical chemistry. B 123 (33) (2019)
Ryan J Menssen, Andrei Tokmakoff
Length-Dependent Melting Kinetics of Short DNA Oligonucleotides Using Temperature-Jump IR Spectroscopy. The journal of physical chemistry. B 123 (4) (2019)
Lukas Whaley-Mayda, Samuel B Penwell, Andrei Tokmakoff
Fluorescence-Encoded Infrared Spectroscopy: Ultrafast Vibrational Spectroscopy on Small Ensembles of Molecules in Solution. The journal of physical chemistry letters 10 (8) (2019)
William B Carpenter, Joseph A Fournier, Nicholas H C Lewis, Andrei Tokmakoff
Picosecond Proton Transfer Kinetics in Water Revealed with Ultrafast IR Spectroscopy. The journal of physical chemistry. B 122 (10) (2018)
Joseph A Fournier, William B Carpenter, Nicholas H C Lewis, Andrei Tokmakoff
Broadband 2D IR spectroscopy reveals dominant asymmetric H5O2+ proton hydration structures in acid solutions. Nature chemistry 10 (9) (2018)
Paul J Sanstead, Andrei Tokmakoff
Direct Observation of Activated Kinetics and Downhill Dynamics in DNA Dehybridization. The journal of physical chemistry. B 122 (12) (2018)
Nicholas H C Lewis, Joseph A Fournier, William B Carpenter, Andrei Tokmakoff
Direct Observation of Ion Pairing in Aqueous Nitric Acid Using 2D Infrared Spectroscopy. The journal of physical chemistry. B 123 (1) (2018)
Joseph N Mastron, Andrei Tokmakoff
Fourier Transform Fluorescence-Encoded Infrared Spectroscopy. The journal of physical chemistry. A 122 (2) (2018)
Paul Stevenson, Andrei Tokmakoff
Ultrafast Fluctuations of High Amplitude Electric Fields in Lipid Membranes. Journal of the American Chemical Society 139 (13) (2017)