University of Wisconsin–Madison

All Papers


Buchanan LE, Maj M, Dunkelberger EB, Cheng PN, Nowick JS, Zanni MT. 2018. Structural Polymorphs Suggest Competing Pathways for the Formation of Amyloid Fibrils That Diverge from a Common Intermediate Species. Biochemistry.

Ho JJ, Ghosh A, Zhang TO, Zanni MT.  2018.  Heterogeneous Amyloid Beta-Sheet Polymorphs Identified on Hydrogen Bond Promoting Surfaces Using 2D SFG Spectroscopy. J. Phys. Chem. A 122(5):1270-1282.

Kratochvil, HT, Zanni MT.  2018.  Two-dimensional infrared (2D IR) spectroscopy for elucidating ion occupancies in the selectivity filter of ion channels. Biomedical Spectroscopy and Imaging 7:3-15.

Lomont, JP, Rich, KL, Maj, M, Ostrander, JP, Zanni MT.  2018.  Spectroscopic Signature for Stable Beta-Amyloid Fibrils versus Beta-Sheet-Rich Oligomers. J. Phys. Chem. B. 122(1):144-153.

Saraswat V, Jacobberger RM, Ostrander JS, Hummell CL, Way AJ, Wang J, Zanni M T, Arnold MS.  2018.  Invariance of Water Permeance through Size-Differentiated Graphene Oxide Laminates. ACS Nano. 12(8):7855-7865.

Shea MJ, Wang J, Flach JT, Zanni MT, Arnold MS.  2018.  Less severe processing improves carbon nanotube photovoltaic performance. APL Materials. 

Petti MK, Lomont JP, Maj M, Zanni M T.  2018.   Two-Dimensional Spectroscopy Is Being Used to Address Core Scientific Questions in Biology and Materials Science. Journal of Physical Chemistry B. 122(6):1771-1780.


Zhang TO, Alperstein AM, Zanni M T.  2017.  Amyloid Beta-Sheet Secondary Structure Identified in UV-Induced Cataracts of Porcine Lenses using 2D IR Spectroscopy. Journal of Molecular Biology. 

Kearns NM, Mehlenbacher RD, Jones AC, Zanni M T.  2017.  Broadband 2D electronic spectrometer using white light and pulse shaping: noise and signal evaluation at 1 and 100 kHz. Optics Express. 25(7):7869-7883.

Ostrander JS, Knepper R, Tappan AS, Kay JJ, Zanni MT, Farrow DA.  2017.  Energy Transfer Between Coherently Delocalized States in Thin Films of the Explosive Pentaerythritol Tetranitrate (PETN) Revealed by Two-Dimensional Infrared Spectroscopy. Journal of Physical Chemistry B. 

Serrano AL, Lomont JP, Tu L-H, Raleigh D P., Zanni M T.  2017.  A Free Energy Barrier Caused by the Refolding of an Oligomeric Intermediate Controls the Lag Time of Amyloid Formation by hIAPP. Journal of the American Chemical Society. 

Yano Y, Kondo K, Watanabe Y, Zhang TO, Ho J-J, Oishi S, Fujii N, Zanni M T., Matsuzaki K.  2017.  GXXXG-Mediated Parallel and Antiparallel Dimerization of Transmembrane Helices and Its Inhibition by Cholesterol: Single-Pair FRET and 2D IR Studies. Angewandte. 

Lomont JP, Ostrander JS, Ho J-J, Petti MK, Zanni M T.  2017.  Not All Beta-Sheets Are the Same: Amyloid Infrared Spectra, Transition Dipole Strengths, and Couplings Investigated by 2D IR Spectroscopy. Journal of Physical Chemistry B. 121(38):8935-8945.

Kratochvil H.T., Maj M., Matulef K., Annen A.W., Ostmeyer J., Perozo E., Roux B., Valiyaveetil F.I., Zanni M T.  2017.  Probing the effects of gating on the ion occupancy of the K+ channel selectivity filter using 2D IR spectroscopy . Journal of the American Chemical Society. 

Wang J, Shea MJ, Flach JT, McDonough TJ, Way AJ, Zanni M T., Arnold MS.  2017.  The Role of Defects as Exciton Quenching Sites in Carbon Nanotube Photovoltaics. Journal of Physical Chemistry C. 

Maj M, Lomont JP, Rich KL, Alperstein AM, Zanni M T.  2017.  Site-specific detection of protein secondary structure using 2D IR dihedral indexing: a proposed assembly mechanism of oligomeric hIAPP. Chemical Science. 

Schneider SH, Kratochvil H.T., Zanni M T., Boxer SG.  2017.  Solvent Independent Anharmonicity for Carbonyl Oscillators. Journal of Physical Chemistry B. 

McDonough TJ, Zhang L, Roy SS, Kearns NM, Arnold MS, Zanni MT, Andrew TL.  2017.  Triplet exciton dissociation and electron extraction in graphene-templated pentacene observed with ultrafast spectroscopy. Phys. Chem. Chem. Phys.

Ghosh A, Ostrander JS, Zanni MT.  2017.  Watching Proteins Wiggle: Mapping Structures with Two-Dimensional Infrared Spectroscopy. Chemical Reviews. 


Ghosh A, Serrano AL, Oudenhoven TA, Ostrander JS, Eklund EC, Blair AF, Zanni M T.  2016.  Experimental implementations of 2D IR spectroscopy through a horizontal pulse shaper design and a focal plane array detector. Optics Letters. 41(3):524-527.

Kratochvil H.T., Carr J.K, Matulef K., Annen A.W., Li H., Maj M., Ostmeyer J., Serrano A L., Raghuraman H., Moran S.D et al.  2016.  Instantaneous ion configurations in the K+ ion channel selectivity filter revealed by 2D IR spectroscopy. Science. 353(6303):1040-1044.

Mehlenbacher RD, McDonough TJ, Kearns NM, Shea MJ, Joo Y, Gopalan P, Arnold MS, Zanni M T.  2016.  Polarization-Controlled Two-Dimensional White-Light Spectroscopy of Semiconducting Carbon Nanotube Thin Films. The Journal of Physical Chemistry C. 120(30):17069-17080.

Ostrander JS, Serrano AL, Ghosh A, Zanni M T..  2016.  Spatially Resolved Two-Dimensional Infrared Spectroscopy via Wide-Field Microscopy. ACS Photonics. 3(7):1315-1323.

Mehlenbacher RD, Wang J, Shea MJ, Flach JT, McDonough TJ, Wu M-Y, Arnold MS, Zanni M T..  2016.  Ultrafast Exciton Hopping Observed in Bare Semiconducting Carbon Nanotube Thin Films with Two-Dimensional White-Light Spectroscopy. The Journal of Physical Chemistry Letters. 7:2024-2031.

Roy S, Skoff DR, Perroni DV, Mondal J, Yethiraj A, Mahanthappa M, Zanni M T, Skinner JL.  2016.  Water Dynamics in Gyroid Phases of Self-Assembled Gemini Surfactants. Journal of the American Chemical Society. 138(8):2472-2475.


Kratochvil H.T., Ha D.G., Zanni M.T.  2015.  Counting tagged molecules one by one: Quantitative photoactivation and bleaching of photoactivatable fluorophores. The Journal of Chemical Physics. 143(104201)

Oudenhoven TA, Joo Y, Laaser JE, Gopalan P, Zanni M T..  2015.  Dye aggregation identified by vibrational coupling using 2D IR spectroscopy. The Journal of Chemical Physics. 142(21):212449.

Mehlenbacher RD, McDonough TJ, Grechko M, Wu M-Y, Arnold MS, Zanni MT.  2015.  Energy transfer pathways in semiconducting carbon nanotubes revealed using two-dimensional white-light spectroscopy. Nature Communications. 6:6732.

Chan GKL, Witkowski A, Gantz DL, Zhang TO, Zanni MT, Jayaraman S, Cavigiolio G.  2015.  Myeloperoxidase-mediated Methionine Oxidation Promotes an Amyloidogenic Outcome for Apolipoprotein A-I. Journal of Biological Chemistry. 290:10958-10971.

Ding B, Panahi A, Ho J-J, Laaser JE, Brooks, III CE, Zanni M T., Chen Z.  2015.  Probing Site-Specific Structural Information of Peptides at Model Membrane Interface In Situ. Journal of the American Chemical Society. 137(2):10190-10198.

Ho J-J, Skoff DR, Ghosh A, Zanni M T.  2015.  Structural Characterization of Single-Stranded DNA Monolayers Using Two-Dimensional Sum Frequency Generation Spectroscopy. The Journal of Physical Chemistry B. 119(33):10586-10596.

Dunkelberger EB, Grechko M, Zanni M T.  2015.  Transition Dipoles from 1D and 2D Infrared Spectroscopy Help Reveal the Secondary Structures of Proteins: Application to Amyloids. Journal of Physical Chemistry B. 119(44):14065-14075.

Ghosh A, Ho J-J, Serrano AL, Zhang T, Zanni MT.  2015.  Two-dimensional sum-frequency generation (2D SFG) spectroscopy: summary of principles and its application to amyloid fiber monolayers. The Royal Society of Chemistry. 177:493-505.

Serrano AL, Ghosh A, Ostrander JS, Zanni MT.  2015.  Wide-field FTIR microscopy using mid-IR pulse shaping. Optics Express. 13(14):17815-17827.


Ghosh A, Wang J, Moroz YS, Korendovych IV, Zanni M, DeGrado WF, Gai F, Hochstrasser RM.  2014.  2D IR spectroscopy reveals the role of water in the binding of channel-blocking drugs to the influenza M2 channel. The Journal of Chemical Physics. 140(23):235105.

Moran SD, Zhang TO, Zanni MT.  2014.  An alternative structural isoform in amyloid-like aggregates formed from thermally denatured human Gamma D-crystallin. Protein Science. 23(3):321√ê331.

Grechko M, Ye Y, Mehlenbacher RD, McDonough TJ, Wu M-Y, Jacobberger RM, Arnold MS, Zanni MT.  2014.  Diffusion Assisted Photoexcitation Transfer in Coupled Semiconducting Carbon Nanotube Thin Films. ACS Nano. 8(6):5383-5394.

Laaser JE, Christianson JR, Oudenhoven TA, Joo Y, Gopalan P, Schmidt JR, Zanni MT.  2014.  Dye Self-association Identified by Intermolecular Couplings Between Vibrational Modes as Revealed by Infrared Spectroscopy, and Implications for Electron Injection. The Journal of Physical Chemistry C. 118(11):5854-5861.

Shea MJ, Mehlenbacher RD, Zanni M T., Arnold MS.  2014.  Experimental Measurement of the Binding Configuration and Coverage of Chirality-Sorting Polyfluorenes on Carbon Nanotubes. 5(21):3742-3749.

Peran I, Oudenhoven TA, Woys AM, Watson MD, Zhang TO, Carrico I, Zanni MT, Raleigh DP.  2014.  A General Strategy for the Bio-orthogonal Incorporation of Strongly Absorbing, Solvation Sensitive Infrared Probes into Proteins. The Journal of Physical Chemistry B. 118(28):7946-7953.

Moran SD, Zanni MT.  2014.  How to Get Insights into Amyloid Structure and Formation from Infrared Spectroscopy. The Journal of Physical Chemistry Letters. (5):1984-1993.

Zhang TO, Buchanan LE, Zanni MT.  2014.  Insights into amylin aggregation by 2D IR spectroscopy. Biomedical Spectroscopy and Imaging. 3(3):189-196.

Tu L-H, Serrano A L, Zanni M T, Raleigh D P.  2014.  Mutational Analysis of Preamyloid Intermediates: The Role of His-Tyr Interactions in Islet Amyloid Formation. Biophysical Journal. 106(7):1520-1527.

Buchanan LE, Carr J.K, Fluitt A.M, Hoganson A.J, Moran S.D, de Pablo J.J, Skinner J.L, Zanni M.T.  2014.  Structural motif of polyglutamine amyloid fibrils discerned with mixed-isotope infrared spectroscopy. Proceedings of the National Academy of Sciences. 111(16):5796-5801.

Laaser JE, Skoff DR, Ho J-J, Joo Y, Serrano AL, Steinkruger JD, Gopalan P, Gellman SH, Zanni MT.  2014.  Two-Dimensional Sum-Frequency Generation Reveals Structure and Dynamics of a Surface-Bound Peptide. Journal of the American Chemical Society. 136(3):956-962.


Dunkelberger EB, Woys AM, Zanni MT.  2013.  2D IR Cross Peaks Reveal Hydrogen-Deuterium Exchange with Single Residue Specificity. The Journal of Physical Chemistry B. 

Moran SD, Zhang TO, Decatur SM, Zanni MT.  2013.  Amyloid Fiber Formation in Human Gamma D-Crystallin Induced by UV-B Photodamage. Biochemistry. 52(36):6169-6181.

Laaser JE, Zanni MT.  2013.  Extracting Structural Information from the Polarization Dependence of One- and Two-Dimensional Sum Frequency Generation Spectra. The Journal of Physical Chemistry A. 117(29):5875-5890.

Mukherjee SS, Skoff DR, Middleton CT, Zanni MT.  2013.  Fully absorptive 3D IR spectroscopy using a dual mid-infrared pulse shaper. J. Chem. Phys. 139

Buchanan LE, Dunkelberger EB, Tran H.Q, Cheng P.-N., Chiu C.-C., Cao P., Raleigh D.P, de Pablo J.J, Nowick J.S, Zanni M.T.  2013.  Mechanism of IAPP amyloid fibril formation involves an intermediate with a transient beta-sheet. Proceedings of the National Academy of Sciences. 110(48):19285-19290.

Mehlenbacher RD, Wu M-Y, Grechko M, Laaser JE, Arnold MS, Zanni MT.  2013.  Photoexcitation Dynamics of Coupled Semiconducting Carbon Nanotube Thin Films. Nano Letters. 13(4):1495-1501.

Skoff DR, Laaser JE, Mukherjee SS, Middleton CT, Zanni MT.  2013.  Simplified and economical 2D IR spectrometer design using a dual acousto-optic modulator. Chemical Physics. 422(30):8-15.

Ding B, Laaser JE, Liu Y, Wang P, Zanni MT, Chen Z.  2013.  Site-Specific Orientation of an Alpha-Helical Peptide Ovispirin-1 from Isotope-Labeled SFG Spectroscopy. The Journal of Physical Chemistry B. 117(47):14625-14634.

Woys AM, Mukherjee S, Skoff DR, Moran SD, Zanni MT.  2013.  A Strongly Absorbing Class of Non-Natural Labels for Probing Protein Electrostatics and Solvation with FTIR and 2D IR Spectroscopies. The Journal of Physical Chemistry B. 117(17):5009-5018.

Lam AR, Moran SD, Preketes NK, Zhang TO, Zanni MT, Mukamel S.  2013.  Study of the Gamma D-Crystallin Protein Using Two-Dimensional Infrared (2DIR) Spectroscopy : Experiment and Simulation. The Journal of Physical Chemistry B. :130823100750005.


Dunkelberger EB, Buchanan LE, Marek PJ, Cao P, Raleigh DP, Zanni MT.  2012.  Deamidation accelerates amyloid formation and alters amylin fiber structure. Journal of the American Chemical Society. 134(30):12658-12667.

Manor J, Feldblum ES, Zanni MT, Arkin IT.  2012.  Environment Polarity in Proteins Mapped Noninvasively by FTIR Spectroscopy. The Journal of Physical Chemistry Letters. 3(7):939-944.

Woys AM, Almeida AM, Wang L, Chiu C-C, McGovern M, De Pablo JJ, Skinner JL, Gellman SH, Zanni MT.  2012.  Parallel Beta-Sheet Vibrational Couplings Revealed by 2D IR Spectroscopy of an Isotopically Labeled Macrocycle: Quantitative Benchmark for the Interpretation of Amyloid and Protein Infrared Spectra. Journal of the American Chemical Society. 134(46):19118-19128.

Grechko M, Zanni MT.  2012.  Quantification of transition dipole strengths using 1D and 2D spectroscopy for the identification of molecular structures via exciton delocalization: Application to alpha-helices. The Journal of Chemical Physics. 137(18):184202.

Moran SD, Decatur SM, Zanni MT.  2012.  Structural and Sequence Analysis of the Human Gamma D-Crystallin Amyloid Fibril Core Using 2D IR Spectroscopy, Segmental  13 C Labeling, and Mass Spectrometry. Journal of the American Chemical Society. 134(44):18410-18416.

Middleton CT, Marek P, Cao P, Chiu C-C, Singh S, Woys AM, De Pablo JJ, Raleigh DP, Zanni MT.  2012.  Two-dimensional infrared spectroscopy reveals the complex behaviour of an amyloid fibril inhibitor. Nature Chemistry. 4:355-360.

Moran SD, Woys AM, Buchanan LE, Bixby E., Decatur SM, Zanni MT.  2012.  Two-dimensional IR spectroscopy and segmental 13C labeling reveals the domain structure of human  D-crystallin amyloid fibrils. Proceedings of the National Academy of Sciences. 109(9):3329-3334.


Wang L, Middleton CT, Singh S, Reddy AS, Woys AM, Strasfeld DB, Marek P, Raleigh DP, De Pablo JJ, Zanni MT et al.  2011.  2DIR Spectroscopy of Human Amylin Fibrils Reflects Stable Beta-Sheet Structure. Journal of the American Chemical Society. 

Xiong W, Laaser JE, Mehlenbacher RD, Zanni MT.  2011.  Adding a dimension to the infrared spectra of interfaces using heterodyne detected 2D sum-frequency generation (HD 2D SFG) spectroscopy. Proceedings of the National Academy of Sciences. 108(52):20902-20907.

Wang L., Middleton CT, Zanni MT, Skinner J.L.  2011.  Development and Validation of Transferable Amide I Vibrational Frequency Maps for Peptides. The Journal of Physical Chemistry B. 115(13):3713-3724.

Buchanan LE, Dunkelberger EB, Zanni MT.  2011.  Examining Amyloid Structure and Kinetics with 1D and 2D Infrared Spectroscopy and Isotope Labeling. Protein Folding and Misfolding: Shining Light by Infrared Spectroscopy. 1:217-237.

Laaser JE, Xiong W, Zanni MT.  2011.  Time-Domain SFG Spectroscopy Using Mid-IR Pulse Shaping: Practical and Intrinsic Advantages. The Journal of Physical Chemistry B. 115(11):2536-2546.

Middleton CT, Buchanan LE, Dunkelberger EB, Zanni MT.  2011.  Utilizing Lifetimes to Suppress Random Coil Features in 2D IR Spectra of Peptides. The Journal of Physical Chemistry Letters. 2:2357-2361.


Woys AMarie, Lin Y-S, Reddy AS, Xiong W, De Pablo JJ, Skinner JL, Zanni MT.  2010.  2D IR Line Shapes Probe Ovispirin Peptide Conformation and Depth in Lipid Bilayers. Journal of the American Chemical Society. 132(8):2832-2838.

Paoprasert P, Laaser JE, Xiong W, Franking RA, Hamers RJ, Zanni MT, Schmidt J.R, Gopalan P.  2010.  Bridge-Dependent Interfacial Electron Transfer from Rhenium_Bipyridine Complexes to TiO  2 Nanocrystalline Thin Films. The Journal of Physical Chemistry C. 114(21):9898-9907.

Marek P, Woys AM, Sutton K, Zanni MT, Raleigh DP.  2010.  Efficient Microwave-Assisted Synthesis of Human Islet Amyloid Polypeptide Designed to Facilitate the Specific Incorporation of Labeled Amino Acids. Organic Letters. 12(21):4848-4851.

Marek P, Mukherjee S, Zanni MT, Raleigh DP.  2010.  Residue-Specific, Real-Time Characterization of Lag-Phase Species and Fibril Growth During Amyloid Formation: A Combined Fluorescence and IR Study of p-Cyanophenylalanine Analogs of Islet Amyloid Polypeptide. Journal of Molecular Biology. 400(4):878-888.

Middleton CT, Woys AM, Mukherjee SS, Zanni MT.  2010.  Residue-specific structural kinetics of proteins through the union of isotope labeling, mid-IR pulse shaping, and coherent 2D IR spectroscopy. Methods. 52(1):12-22.

Reddy AS, Wang L, Lin Y-S, Ling Y, Chopra M, Zanni MT, Skinner JL, De Pablo JJ.  2010.  Solution Structures of Rat Amylin Peptide: Simulation, Theory, and Experiment. Biophysical Journal. 98(3):443-451.

Reddy AS, Wang L, Singh S, Ling YL, Buchanan LE, Zanni MT, Skinner JL, De Pablo JJ.  2010.  Stable and Metastable States of Human Amylin in Solution. Biophysical Journal. 99(7):2208-2216.

Meng F, Abedini A, Plesner A, Middleton CT, Potter KJ, Zanni MT, C. Verchere B, Raleigh DP.  2010.  The Sulfated Triphenyl Methane Derivative Acid Fuchsin Is a Potent Inhibitor of Amyloid Formation by Human Islet Amyloid Polypeptide and Protects against the Toxic Effects of Amyloid Formation. Journal of Molecular Biology. 400(3):555-566.


Xiong W, Strasfeld DB, Shim S-H, Zanni MT.  2009.  Automated 2D IR spectrometer mitigates the influence of high optical densities. Vibrational Spectroscopy. 50(1):136-142.

Lin Y-S, Shorb J.M, Mukherjee P., Zanni MT, Skinner J.L.  2009.  Empirical Amide I Vibrational Frequency Map: Application to 2D-IR Line Shapes for Isotope-Edited Membrane Peptide Bundles ¬†The Journal of Physical Chemistry B. 113(3):592-602.

Manor J, Mukherjee P, Lin Y-S, Leonov H, Skinner JL, Zanni MT, Arkin IT.  2009.  Gating Mechanism of the Influenza A M2 Channel Revealed by 1D and 2D IR Spectroscopies. Structure. 17(2):247-254.

Shim S-H, Zanni MT.  2009.  How to turn your pump√êprobe instrument into a multidimensional spectrometer: 2D IR and Vis spectroscopies via pulse shaping. Physical Chemistry Chemical Physics. 11(5):748.

Strasfeld DB, Middleton CT, Zanni MT.  2009.  Mode selectivity with polarization shaping in the mid-IR. New Journal of Physics. 11(10):105046.

Strasfeld DB, Shim S-H, Zanni MT.  2009.  New Advances in Mid-IR Pulse Shaping and its Application to 2D IR Spectroscopy and Ground-State Coherent Control. Advances in Chemical Physics. 141:1-28.

Middleton CT, Strasfeld DB, Zanni MT.  2009.  Polarization shaping in the mid-IR and polarization-based balanced heterodyne detection with application to 2D IR spectroscopy. Optics Express. 17(17):14526.

Strasfeld DB, Ling YL, Gupta R, Raleigh DP, Zanni MT.  2009.  Strategies for Extracting Structural Information from 2D IR Spectroscopy of Amyloid: Application to Islet Amyloid Polypeptide. The Journal of Physical Chemistry B. 113(47):15679-15691.

Xiong W, Laaser JE, Paoprasert P, Franking RA, Hamers RJ, Gopalan P, Zanni MT.  2009.  Transient 2D IR Spectroscopy of Charge Injection in Dye-Sensitized Nanocrystalline Thin Films. Journal of the American Chemical Society. 131(50):18040-18041.

Ling YL, Strasfeld DB, Shim S-H, Raleigh DP, Zanni MT.  2009.  Two-dimensional Infrared Spectroscopy Provides Evidence of an Intermediate in the Membrane-catalyzed Assembly of Diabetic Amyloid. The Journal of Physical Chemistry B. 113(8):2498-2505.

Shim S.-H., Gupta R., Ling Y.L, Strasfeld D.B, Raleigh D.P, Zanni MT.  2009.  Two-dimensional IR spectroscopy and isotope labeling defines the pathway of amyloid formation with residue-specific resolution. Proceedings of the National Academy of Sciences. 106(16):6614-6619.


Krummel AT, Zanni MT.  2008.  Evidence for Coupling between Nitrile Groups Using DNA Templates:  A Promising New Method for Monitoring Structures with Infrared Spectroscopy. The Journal of Physical Chemistry B. 112(5):1336-1338.

Xiong W, Zanni MT.  2008.  Signal enhancement and background cancellation in collinear two-dimensional spectroscopies. Optics Letters. 33(12):1371.

Strasfeld DB, Ling YL, Shim S-H, Zanni MT.  2008.  Tracking Fiber Formation in Human Islet Amyloid Polypeptide with Automated 2D-IR Spectroscopy. Journal of the American Chemical Society. 130(21):6698-6699.


Strasfeld DB, Shim S-H, Zanni MT.  2007.  Controlling Vibrational Excitation with Shaped Mid-IR Pulses. Physical Review Letters. 99(3)

Grumstrup EM, Shim S-H, Montgomery MA, Damrauer NH, Zanni MT.  2007.  Facile collection of two-dimensional electronic spectra using femtosecond pulse-shaping Technology. Optics Express. 15(25):16681.

Ding F, Zanni MT.  2007.  Heterodyned 3D IR spectroscopy. Chemical Physics. 341(1-3):95-105.

Shim S.-H., Strasfeld D.B, Ling Y.L, Zanni MT.  2007.  Multidimensional Ultrafast Spectroscopy Special Feature: Automated 2D IR spectroscopy using a mid-IR pulse shaper and application of this technology to the human islet amyloid polypeptide. Proceedings of the National Academy of Sciences. 104(36):14197-14202.


Krummel AT, Zanni MT.  2006.  DNA Vibrational Coupling Revealed with Two-Dimensional Infrared Spectroscopy:  Insight into Why Vibrational Spectroscopy Is Sensitive to DNA Structure. The Journal of Physical Chemistry B. 110(28):13991-14000.

Shim S-H, Strasfeld DB, Fulmer EC, Zanni MT.  2006.  Femtosecond pulse shaping directly in the mid-IR using acousto-optic modulation. Optics Letters. 31(6):838.

Shim S-H, Strasfeld DB, Zanni MT.  2006.  Generation and characterization of phase and amplitude shaped femtosecond mid-IR pulses. Optics Express. 14(26):13120.

Krummel AT, Zanni MT.  2006.  Interpreting DNA Vibrational Circular Dichroism Spectra Using a Coupling Model from Two-Dimensional Infrared Spectroscopy. The Journal of Physical Chemistry B. 110(48):24720-24727.

Ding F, Mukherjee P, Zanni MT.  2006.  Passively correcting phase drift in two-dimensional infrared spectroscopy. Optics Letters. 31(19):2918.

Mukherjee P, Kass I, Arkin IT, Zanni MT.  2006.  Picosecond dynamics of a membrane protein revealed by 2D IR. Proceedings of the National Academy of Sciences. 103(10):3528-3533.

Mukherjee P, Kass I, Arkin IT, Zanni MT.  2006.  Structural Disorder of the CD3_ Transmembrane Domain Studied with 2D IR Spectroscopy and Molecular Dynamics Simulations. The Journal of Physical Chemistry B. 110(48):24740-24749.


Fulmer EC, Ding F, Zanni MT.  2005.  Heterodyned fifth-order 2D-IR spectroscopy of the azide ion in an ionic glass. The Journal of Chemical Physics. 122(3):034302.

Ding F, Fulmer EC, Zanni MT.  2005.  Heterodyned fifth-order two-dimensional IR spectroscopy: Third-quantum states and polarization selectivity. The Journal of Chemical Physics. 123(9):094502.

Fulmer EC, Ding F, Mukherjee P, Zanni MT.  2005.  Vibrational Dynamics of Ions in Glass from Fifth-Order Two-Dimensional Infrared Spectroscopy. Physical Review Letters. 94(6)


Fulmer EC, Mukherjee P, Krummel AT, Zanni MT.  2004.  A pulse sequence for directly measuring the anharmonicities of coupled vibrations: Two-quantum two-dimensional infrared spectroscopy. The Journal of Chemical Physics. 120(17):8067.

Mukherjee P, Krummel AT, Fulmer EC, Kass I, Arkin IT, Zanni MT.  2004.  Site-specific vibrational dynamics of the CD3_ membrane peptide using heterodyned two-dimensional infrared photon echo spectroscopy. The Journal of Chemical Physics. 120(21):10215.


Krummel AT, Mukherjee P, Zanni MT.  2003.  Inter and Intrastrand Vibrational Coupling in DNA Studied with Heterodyned 2D-IR Spectroscopy. The Journal of Physical Chemistry B. 107(35):9165-9169.