Baiz Group Publications

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*undergraduate authors are underlined

  1. Ziareena A. Al-Mualem, Xiaobing Chen, Joseph C. Shirley, Cong Xu, Carlos R. Baiz “BoxCARS 2D IR Spectroscopy with Pulse Shaping“, Submitted (2022) [ChemRxiv]
  2. Xiao You, and Carlos R. Baiz “The Importance of Hydrogen-bonding in Crowded Environments: A Physical Chemistry Perspective“, J. Phys. Chem. A, In Press (2022)
  3. Euihyun Lee, and Carlos R. Baiz, How cryoprotectants work: hydrogen-bonding in low-temperature vitrified solutions, Submitted (2022)
  4. Moshe Giladi, Sunayana Mitra, Luba Simhaev, Reuben Hiller, Bosmat Refaeli, Tali Strauss, Carlos R. Baiz,and Daniel Khananshvili “Exploring the Li+ transporting mutant of NCX_Mj for assigning ion binding sites of mitochondrial NCLX“, Submitted, (2022)
  5. Xiao You, Naveen Thakur, Arka Prabha Ray, Matthew T. Eddy, Carlos R. Baiz “A Comparative Study of Interfacial Environments in Lipid Nanodiscs and Vesicles“, Biophysical Reports (2022) [PDF]
  6. Ziareena A. Al-Mualem, and Carlos R. Baiz, “Generative Adversarial Neural Networks for Denoising Coherent Multidimensional Spectra“, Journal of Physical Chemistry A (2022) [PDF]
  7. Judith Flores, Roberto J. Brea, Alejandro Lamas, Marta Salvador-Castell, Cong Xu, Carlos R. Baiz, Sunil K. Sinha, and Neal K. Devaraj, “Rapid and Sequential Dual Oxime Ligation Enables De Novo Formation of Functional Synthetic Membranes from Water-soluble Precursors“, Submitted (2022)
  8. Ruoqi Zhao, Joseph C. Shirley, Euihyun Lee, Adam Grofe, Hui Li, Carlos R. Baiz, and Jiali Gao, “Origin of Thiocyanate Spectral Shifts of in Water and Organic Solvents“, Journal of Chemical Physics (2022) [PDF]
  9. Euihyun Lee, Xiao You, and Carlos R. Baiz, “Interfacial Dynamics in Inverted-Headgroup Lipid Membranes“, Journal of Chemical Physics (2022) [PDF]
  10. Paul Garrett, and Carlos R. Baiz, “Dynamic effect of polymers at the surfactant–water interface: an ultrafast study“, Soft Matter (2022) [PDF]
  11. Xiao You, Euihyun Lee, Cong Xu, Carlos R. Baiz, “Molecular Mechanism of Cell Membrane Protection by Sugars: A Study of Interfacial H-bond Networks“, Journal of Physical Chemistry Letters (2021) [PDF]
  12. Mason L. Valentine, Ziareena A. Al-Mualem, Carlos R. Baiz, “Pump Slice Amplitudes: A Simple and Robust Method for Connecting 2D IR and FTIR Spectra” Journal of Physical Chemistry A (2021) [PDF]
  13. Stephanie Liu, Emily R. Featherston, Joseph A. Cotruvo, Jr., and Carlos R. Baiz, Lanthanide-dependent coordination interactions in lanmodulin: a 2D IR and molecular dynamics simulations study, Physical Chemistry Chemical Physics,  (2021) [PDF]
  14. Bosmat Refaeli, Stephanie Liu, Reuben Hiller, Carlos R. Baiz and Daniel Khananshvili, “Proton-modulated interactions of ions with transport sites of prokaryotic and eukaryotic NCX prototypes  ”, Cell Calcium  (2021) [PDF]
  15. Christopher P Baryiames, Paul Garrett, and Carlos R. Baiz, “Bursting the bubble: a molecular understanding of surfactant-water interfaces“, Journal of Chemical Physics (2021) [PDF]
  16. Sean C. Edington, Stephanie Liu, and Carlos R. Baiz, “Infrared spectroscopy probes ion binding geometries”, Methods in Enzymology, Volume 651 Pages 157-191, (2021)
  17. Xiao You, Joseph C. Shirley, Euihyun Lee, Carlos R. Baiz, “Short- and long-range crowding effects on water’s hydrogen bond networks“, Cell Reports Physical Science (2021) [PDF]
  18. Christopher P. Baryiames, Emily Ma, and Carlos R. Baiz, “Ions slow water dynamics at non-ionic surfactant interfaces“, J. Phys. Chem. A (2020) [PDF]
  19. Mason L. Valentine, Maya K Waterland, Arman Fatizadeh, Ron Elber, and Carlos R. Baiz, “Interfacial Dynamics in Lipid Membranes: the Effects of Headgroup Structure“, J. Phys. Chem. A (2020) [PDF]
  20. Jennifer C. Flanagan, Mason L. Valentine, Carlos R. Baiz, “Ultrafast dynamics at lipid-water interfaces“, Accounts of Chemical Research  (2020) [PDF]
  21. Arman Fathizadeh, Mason Valentine, Carlos R. Baiz, Ron Elber, “Phase Transition in a Heterogeneous Membrane: Atomically Detailed Picture“, J. Phys. Chem. Lett.  (2020)[PDF]
  22. Carlos R. Baiz, Bartosz Blasiak, Jens Bredenbeck, Minhaeng Cho* (corresponding author), Jun-Ho Choi, Steven A. Corcelli, Arend G. Dijkstra, Chi-Jui Feng, Sean Garrett-Roe, Nien-Hui Ge, Magnus W. Hanson-Heine, Jonathan D. Hirst, Thomas la Cour Jansen, Kijeong Kwac, Kevin J. Kubarych, Casey H. Londergan, Hiroaki Maekawa, Mike Reppert, Shinji Saito, Santunu Roy, James L. Skinner, Gerhard Stock, John E. Straub, Megan C. Thielges, Keisuke Tominaga, Andrei Tokmakoff, Hajime Torii, Lu Wang, Lauren J. Webb, and Martin T. Zanni,  Vibrational Frequency Map, Vibrational Spectroscopy, and Intermolecular Interaction, Chemical Reviews (2020) [PDF]
  23. Ravi K. Venkatraman, and Carlos R. Baiz, “Ultrafast dynamics at the lipid-water interface: DMSO modulates H-bond lifetimes“, Langmuir (2020) [PDF]
  24. Kwang-Im Oh, and Carlos R. Baiz, “Perspective: Molecular Heterogeneity in Aqueous Cosolvent Systems”, Journal of Chemical Physics (2020)[PDF]
  25. Jennifer C. Flanagan, Alfredo E. Cardenas, Carlos R. Baiz, “Ultrafast spectroscopy of lipid-water interfaces: transmembrane crowding drives H-bond dynamics”, Journal of Physical Chemistry Letters (2020) [PDF]
  26. Ji Yeon Kim, Philip Liu, Michael J. Maher, Devon Callan, Christopher M. Bates, Matthew C. Carlson, Yusuke Asano, Gregory Blachut, Charles T. Rettner, Joy Y. Cheng, Daniel F. Sunday, R. Joseph Kline, Daniel P. Sanders, Nathaniel A. Lynd, Christopher J. Ellison, C. Grant Willson, and Carlos R. Baiz, “Spatial Control of Self-Assembled Block Copolymer Domain Orientation and Alignment on Photo-Patterned Surfaces“, ACS Applied Materials and Interfaces (2020)[PDF]
  27. Christopher P. Baryiames, and Carlos R. Baiz, “Slow oil, slow water: long-range dynamic coupling across a liquid-liquid interface“, Journal of the American Chemical Society (2020)[PDF]
  28. Kwang-Im Oh, Xiao You, Jennifer C. Flanagan, and Carlos R. Baiz, “Liquid–Liquid Phase Separation Produces Fast H-Bond Dynamics in DMSO–Water Mixtures“, Journal of Physical Chemistry Letters,  11, 5, 1903-1908, (2020) [PDF]
  29. Mason L. Valentine, Alfredo Cardenas, Ron Elber, and Carlos R. Baiz, “Calcium-Lipid Interactions Observed with Isotope-Edited Infrared Spectroscopy“, Biophysical Journal, In Press (2020).
  30. Carlos R. Baiz, “Interactive Tools for Teaching Fourier Transforms“, The Biophysicist, 1,1, (2020). [Inaugural Issue] [PDF] [MATLAB Software]
  31. Kwang-Im Oh, and Carlos R. Baiz, “Empirical S=O stretch vibrational frequency map“, Journal of Chemical Physics, 151,234107, (2019) [PDF]
  32. Jennifer C. Flanagan, and Carlos R. Baiz, “Ultrafast pH-jump 2D IR spectroscopy“, Optics Letters, 44.20, 4937-4940, (2019).[PDF]
  33. Christopher P. Baryiames, Morgan Teel, and Carlos R. Baiz, “Interfacial H-bond dynamics in reverse micelles: the role of surfactant heterogeneity“, Langmuir, 35, 11463-11470 (2019) [PDF].
  34. Sean C. Edington, D. Brent Halling, Suzanna Bennett, Thomas R. Middendorf, Richard W. Aldrich and Carlos R. Baiz, “Non-additive Effects of Binding Site Mutations in Calmodulin“, Biochemistry, 58, 24, 2730-2739, (2019) [PDF]
  35. Jennifer C. Flanagan, and Carlos R. Baiz, “Site-specific peptide probes detect buried water in a lipid membrane“, Biophysical Journal, 116, 9, 1692-1700 (2019).[PDF]
  36. Sean C. Edington, and Carlos R. Baiz, “Vibrational Relaxation in EDTA is Ion Dependent“, Journal of Physical Chemistry A, 122, 32, 6585–6592 (2018). [PDF]
  37. Mason L. Valentine, Alfredo E. Cardenas, Ron Elber, and Carlos R. Baiz “Physiological Calcium Concentrations Slow Dynamics at the Lipid-Water Interface“, Biophysical Journal, 115, 8, 1541-1551 (2018)[PDF]
  38. Kwang-Im Oh, and Carlos R. Baiz “Crowding Stabilizes DMSO – Water Hydrogen-bonding Interactions“, Journal of Physical Chemistry B122 (22), pp 5984–5990 (2018) [PDF]
  39. Sean C. Edington, Andrea Gonzalez, Thomas R. Middendorf, D. Brent Halling, Richard W. Aldrich, and Carlos R. Baiz, “Coordination to lanthanide ions distorts binding site conformation in calmodulin“,
  40. Kwang-Im Oh, Kavya Rajesh, John F. Stanton, and Carlos R. Baiz, “Quantifying Hydrogen-Bond Populations in Dimethyl Sulfoxide/Water Mixtures“, Angewandte Chemie International Edition, 56, 11375 (2017) [DOI: 10.1002/ange.201704162]
  41. Sean Coleman Edington, Jennifer C. Flanagan, and Carlos R. Baiz, “An Empirical IR Frequency Map for Ester C=O Stretching Vibrations“, Journal of Physical Chemistry A, 120, 3888 (2016) [PDF]

Prior to UT:

  1. Xin-Xing Zhang, Kevin C. Jones, Ann Fitzpatrick, Chunte Sam Peng, Chi-Jui Feng, Carlos R. Baiz, and Andrei Tokmakoff, “Studying Protein-Protein Binding Through T-Jump Induced Dissociation: Transient 2D IR Spectroscopy of Insulin Dimer“, J. Phys. Chem. B, ASAP (2016) [PDF]Insulin_Paper_Abstract
  2. Paul Stevenson, Christoph Götz, Carlos R. Baiz, Jasper Akerboomf, Andrei Tokmakoff and Alipasha Vaziri, “Visualizing KcsA conformational changes upon ion binding by atomistic modeling of infrared spectroscopyJ. Phys. Chem. B, 118, 5824 (2015) [PDF]Stevenson_JPCA_2015
  3. Carlos R. Baiz, and Andrei Tokmakoff “Structural Disorder of Folded Proteins: Isotope-Edited 2D IR Spectroscopy and Markov State ModelingBiophys J. 108, 7, 1747 (2015) [PDF]Baiz_Biophys_J_2015
  4. Carlos R. Baiz, Denise Schach, and Andrei Tokmakoff, “Ultrafast 2D IR microscopy” Optics Express, 22, 18724 (2014) [PDF]Baiz_OptExp_2014
  5. Carlos R. Baiz, Yu-Shan Lin, Chunte Sam Peng, Kyle A. Beauchamp, Vincent A. Voelz, Vijay S. Pande, and Andrei Tokmakoff “A Molecular Interpretation of 2D IR Protein Folding Experiments with Markov State Models“, Biophysical Journal, 106, 1359 (2014) [PDF]Baiz_Biophys_J_2014
  6. Chunte Sam Peng, Carlos R. Baiz, Andrei Tokmakoff, “Direct observation of ground-state lactam-lactim tautomerization using temperature-jump transient 2D IR spectroscopy”, Proc. Nat. Acad. Sci. 110, 9243-9248 (2013) [PDF]Peng_PNAS_2013
  7. Bowu Luan, Bing Shan, Carlos R. Baiz, Andrei Tokmakoff, and Daniel P. Raleigh, “Cooperative Cold Denaturation: The Case of the C-Terminal Domain of Ribosomal Protein L9”, Biochem. 52, 2402-2409 (2013) [PDF]Luan_Biochem_2013
  8. Carlos R. Baiz, Mike Reppert, and Andrei Tokmakoff, “Amide I Two-Dimensional Infrared Spectroscopy: Methods for Visualizing the Vibrational Structure of Large Proteins”, J. Phys. Chem. A.  117, 5955-5961 (2013) [PDF]Baiz_JPCA_2013
  9. Jessica M. Anna, Carlos R. Baiz, Matthew R. Ross, Robert McCanne, and Kevin J. Kubarych,  Ultrafast equilibrium and non-equilibrium chemical reaction dynamics probed with multidimensional infrared spectroscopy, Int. Rev. Phys. Chem. 3, 367 (2012) [PDF]Anna_IntRevPhysChem_2012
  10. Carlos R. Baiz, Chunte S. Peng, Michael E. Reppert, Kevin C. Jones, and Andrei Tokmakoff, “Coherent two-dimensional infrared spectroscopy: Quantitative analysis of protein secondary structure in solution”, Analyst, 137, 1793-1799 (2012) [PDF]Baiz_Analyst_2012
  11. Carlos R. Baiz, Kevin J. Kubarych, Eitan Geva and Edwin L. Sibert III, “Local-mode approach to modeling multidimensional infrared spectra of metal carbonyls”,  J. Phys. Chem. A. 115 (21), 5354 ,(2011) [PDF]Baiz_JPCA_2011
  12. Carlos R. Baiz, Kevin J. Kubarych, and Eitan Geva, “Molecular Theory and Simulation of Coherence Transfer in Metal Carbonyls and Its Signature on Multidimensional Infrared Spectra” J. Phys. Chem. B, 115, (18) , 5322, (2011) [PDF]Baiz_JPCA_2010
  13. Carlos R. Baiz, and Kevin J. Kubarych and Eitan Geva, “Ultrabroadband Detection of an Infrared Continuum by Chirped-Pulse Upconversion” Optics Letters, 36 (2) 187, (2011) [PDF]Baiz_OptLett_2011
  14. John T. King, Carlos R. Baiz and Kevin J. Kubarych. “Solvent-Dependent Spectral Diffusion in a Hydrogen Bonded “Vibrational Aggregate”” J. Phys. Chem. A. 114 (39) 10590 (2010) [PDF]King_JPCA_2010
  15. Carlos R. Baiz and Kevin J. Kubarych, “Ultrafast Transient Vibrational Stark Spectroscopy: Exploring Excited-State Charge-Transfer by Measuring the Solvent Response”,  J. Amer. Chem. Soc (Comm), 132 (37), 12784-12785 (2010) [PDF]Baiz_JACS_2010
  16. Carlos R. Baiz, Robert McCanne, and Kevin J. Kubarych, “Transient vibrational echo versus transient absorption spectroscopy: A direct experimental and theoretical comparison”, Applied Spectroscopy, 64 (9) 1037-1044 (2010) [PDF]Baiz_ApplSpec_2010
  17. Jessica. M. Anna, Matthew. J. Nee, Carlos. R. Baiz, Robert. McCanne, Kevin. J. Kubarych, “Measuring Absorptive Two-Dimensional Infrared Spectra Using Chirped-Pulse Upconversion Detection”,  J. Opt. Soc. Am. B, 27, 382-393 (2010) [PDF]Anna_JOSAB_2010
  18. Carlos R. Baiz, Robert McCanne, and Kevin J. Kubarych, “Structurally Selective Geminate Rebinding Dynamics of Solvent-Caged Radicals Studied with Nonequilibrium Infrared Echo Spectroscopy”, J. Amer. Chem. Soc, 131 (38), 13590, (2009) [PDF]Baiz_JACS_2009
  19. Carlos R. Baiz, Porscha L. McRobbie, Nicholas K. Preketes, Kevin J. Kubarych, and Eitan Geva, “Two-Dimensional Infrared Spectroscopy of Dimanganese Decacarbonyl and Its Photoproducts: An Ab Initio Study”, J. Phys. Chem. A, 113, (35), 9617, (2009) [PDF]Baiz_JPCA_2009_3
  20. Carlos R. Baiz, Robert McCanne, Matthew J. Nee, and Kevin J. Kubarych, “Orientational dynamics of transient molecules measured by non-equilibrium two-dimensional infrared spectroscopy”,  J. Phys. Chem A, 113 (31), 8907, (2009) [PDF]Baiz_JPCA_2009_2
  21. Carlos R. Baiz, Porscha L. McRobbie, Jessica M. Anna, Eitan Geva, and Kevin J. Kubarych, “Two-dimensional Spectroscopy of Metal Carbonyls”,  Accounts of Chemical Research, 42, (9), 1395, (2009) [PDF]Baiz_AccChemRes_2009
  22. Carlos R. Baiz, Sarah J. Ledford, Kevin J Kubarych, and Barry D. Dunietz, “Beyond 7-Azaindole:  Conjugation Effects on Intermolecular Double Hydrogen-atom Transfer Reactions”, J. Phys. Chem A., 113 (17), 4862, (2009) [PDF]Baiz_JPCA_2009
  23. Carlos R. Baiz, Matthew J. Nee, Robert McCanne, and Kevin J. Kubarych, “Ultrafast non-equilibrium Fourier-transform two-dimensional infrared spectroscopy”, Optics Letters, 33, 2533, (2008) [PDF]

    Baiz_OptLett_2008
  24. Matthew J. Nee, Carlos R. Baiz, Jessica M. Anna, Robert McCanne, and Kevin J. Kubarych, “Multilevel vibrational coherence transfer and wavepacket dynamics probed with multidimensional IR spectroscopy”, J. Chem. Phys. 129, 084503. (2008) [PDF]Nee_JCP_2008
  25. Carlos R. Baiz and Barry D. Dunietz, “Theoretical Studies of Conjugation Effects on Excited State Intramolecular Hydrogen-Atom Transfer Reactions in Model Systems”, J. Phys. Chem. A, 111 (40), 10139, (2007) [PDF]Baiz_JPCA_2007

Book Chapter

  1. Carlos R. Baiz, Mike E. Reppert, and Andrei Tokmakoff, “An Introduction to Protein 2D IR Spectroscopy“, Ultrafast Infrared Vibrational Spectroscopy, Edited by Michael D. Fayer CRC Press, ISBN: 1466510137, (2013) [PDF]Baiz_BookChapter_2013