(*Corresponding Author, ^#Undergraduate Student, and ^†Equal Contribution)
A complete and updated list of publications can be found here.

Publications at Yale:

1. Santiago, T.^†; Konstantinovsky, D.^†; Tremblay, M.^†; Perets, E.*; Hammes-Schiffer, S.*; Yan, E. C. Y.* "Drug binding disrupts chiral water structures in the DNA first hydration shell" Chemical Science, 16, 6853-6861, 2025.
2. Perets, E.; Santiago, T.; Neu, J.; Yan, E. C. Y.* "Water-protein interactions as a driver of phase separation, biology, and disease" Biophysical Journal, 123, 3859-3862, 2024.
3. Perets, E.^†; Konstantinovsky, D.^†; Santiago, T.; Videla, P.; Tremblay, M.; Velarde, L.; Batista, V.; Hammes-Schiffer, S.*; Yan, E. C. Y.* "Beyond the "Spine of Hydration": Chiral SFG spectroscopy detects DNA first hydration shell and base pair structures" The Journal of Chemical Physics, 161, 095104, 2024.
4. Konstantinovsky, D.; Santiago, T.; Tremblay, M.; Simpson, G. J.; Hammes-Schiffer, S.*; Yan, E. C. Y.* "Theoretical basis for interpreting heterodyne chirality-selective sum frequency generation spectra of water" The Journal of Chemical Physics, 160, 055102, 2024.
5. Konstantinovsky, D.; Yan, E. C. Y.*; Hammes-Schiffer, S.* "Characterizing Interfaces by Voronoi Tessellation" Journal of Physical Chemistry Letters, 14, 5260, 2023.
6. Yan, E. C. Y.*; Perets, E. A.; Konstantinovsky, D.; Hammes-Schiffer, S. "Detecting Interplay of Chirality, Water, and Interfaces for Elucidating Biological Functions" Accounts of Chemical Research, 56, 12, 1494, 2023.
7. Konstantinovsky, D.; Perets, E. A.; Santiago, T.; Olesen, K.; Wang, Z.; Soudackov, A., V,; Yan, E. C. Y.*; Hammes-Schiffer, S.* "Design of an Electrostatic Frequency Map for the NH Stretch of the Protein Backbone and Application to Chiral Sum Frequency Generation Spectroscopy" The Journal of Physical Chemistry B, 127, 11, 2418, 2023.
8. Konstantinovsky, D.^†; Perets, E. A.^†; Santiago, T.; Velarde, L.; Hammes-Schiffer, S.*; Yan, E. C. Y.* "Detecting the First Hydration Shell Structure around Biomolecules at Interfaces" ACS Central Science, 8, 10, 1404, 2022.

   Read the first reaction to the paper:
   Nagata and Bonn. "Biomolecular Chirality Is Imprinted on One Layer of Hydration Water".

9. Perets, E. A.; Olesen, K. B.; Yan, E. C. Y.* "Chiral Sum Frequency Generation Spectroscopy Detects Double-Helix DNA at Interfaces" Langmuir, 38, 5765, 2022.
10. Konstantinovsky, D.; Perets, E. A.; Yan, E. C. Y.*; Hammes-Schiffer, S.* "Simulation of the Chiral Sum Frequency Generation Response of Supramolecular Structures Requires Vibrational Couplings" The Journal of Physical Chemistry B, 125, 12072, 2021.
11. Perets, E. A.^†; Konstantinovsky, D.^†; Fu, L.; Chen, J.; Wang, H.-F.; Hammes-Schiffer, S.*; Yan, E. C. Y.* "Mirror-image antiparallel β-sheets organize water molecules into superstructures of opposite chirality" Proceedings of the National Academy of Sciences, 117, 32902, 2020.

    Read the commentary:
    Pullanchery and Roke. "Handy water: Chiral superstructures around peptide β-sheets".

12. Perets, E. A.; Chabeda, D.^#; Gong, A. Z.^#; Huang, X.; Fung, T. S.; Ng, K. Y.; Bathgate, M.*; Yan, E. C. Y.* "Impact of the Emergency Transition to Remote Teaching on Student Engagement in a Non-STEM Undergraduate Chemistry Course in the Time of COVID-19" The Journal of Chemical Education, 97, 2439, 2020.
13. Perets, E. A.^†; Videla, P. E.^†; Yan, E. C. Y.*; Batista, V. S.* "Chiral Inversion of Amino Acids in Anti-Parallel β-sheets Probed by Vibrational Sum Frequency Generation Spectroscopy" The Journal of Physical Chemistry B, 123, 5769, 2019.
14. Perets, E. A.; Yan, E. C. Y.* "Chiral Water Superstructures Around Anti-Parallel β-sheets Observed by Chiral Vibrational Sum Frequency Generation Spectroscopy" The Journal of Physical Chemistry Letters, 10, 3395, 2019.
15. Liu, W.; Fu, L.; Wang, Z.; Sohrabpour, Z.; Li, X.; Liu, Y.; Wang, H.-F.; Yan, E. C. Y.* "Two dimensional crowding effects on protein folding at interfaces observed by chiral vibrational sum frequency generation spectroscopy" Physical Chemistry Chemical Physics, 20, 22421, 2018.
16. Culhane, K. J.; Belina, M. E.; Sims, J. N.; Cai, Y.; Liu, Y.; Wang, P. S. P.; Yan, E. C. Y.* "Parathyroid Hormone Senses Extracellular Calcium to Modulate Endocrine Signaling upon Binding to the Family B GPCR Parathyroid Hormone 1 Receptor" ACS Chemical Biology, 13, 2347, 2018.
17. Kaufman, G.; Liu, W.; Williams, D. M.; Choo, Y.; Gopinadhan, M.; Samudrala, N.; Sarfati, R.; Yan, E. C. Y.; Regan, L.; Osuji, C.* "Flat Drops, Elastic Sheets, and Microcapsules by Interfacial Assembly of a Bacterial Biofilm Protein, BslA" Langmuir, 33, 13590, 2017.
18. Szundi, I.; Funatogawa, C.; Guo, Y.; Yan, E. C. Y.; Kliger, D. S.* "Protein Sequence and Membrane Lipid Roles in the Acitivation Kinetics of Bovine and Human Rhodopsins" Biophysical Journal, 113, 1934, 2017.
19. Liu, W.; Li, S.; Wang, Z.; Yan, E. C. Y.*; Leblanc, R. M.* "Characterization of surface-active biofilm protein BslA in self-assembling monolayer at the air-water interface" Langmuir, 33, 7548, 2017.
20. Cai, Y.; Liu, Y.; Culhane, K.J.; DeVree, B. T.; Yang, Y.; Sunahara, R. K.; Yan, E. C. Y.* "Purification of family B G protein-coupled receptors using nanodiscs: Application to human glucagon-like peptide-1 receptor" PLOS ONE, 12, e0179568, 2017.
21. Perets, E. A.; Yan, E. C. Y.* "The H₂O Helix: The Chiral Water Superstructure Surrounding DNA" ACS Central Science, 3, 683, 2017.
22. Guo, Y.; Hendrickson, H. P.; Videla, P. E.; Chen, Y.-N.; Ho, J.; Sekharan, S.; Batista, V. S.; Tully, J. C.; Yan, E. C. Y.* "Probing the remarkable thermal kinetics of visual rhodopsin with E181Q and S186A mutants" The Journal of Chemical Physics, 146, 215104, 2017.
23. Serebryany, E.; Folta-Stogniew, E.; Liu, J.; Yan, E. C. Y.* "Homodimerization enhances both sensitivity and dynamic range of the ligand-binding domain of type 1 metabotropic glutamate receptor" FEBS Letters, 590, 4308, 2016.
24. Schloss, A.^†; Liu, W.^†; Williams, D. M.^†; Kaufman, G.; Hendrickson, H. P.; Rudshteyn, B.; Fu, L.; Wang, H.; Batista, V. S.; Osuji, C.; Yan, E. C. Y.*; Regan, L.*; "Fabrication of Modularly Functionalizable Microcapsules Using Protein-Based Technologies" ACS Biomater. Sci. Eng., 2, 1856, 2016.
25. Singhal, A.; Guo, Y.; Matkovic, M.; Schertler, G.; Deupi, X.; Yan, E. C. Y.*; Standfuss, J. "Structural role of the T94I rhodopsin mutation in congenital stationary night blindness" EMBO reports, 17, 1237, 2016.
26. Wang, Z.; Morales-Acosta, M. D.; Li, S.; Liu, W.; Kanai, T.; Liu, Y.; Chen, Y. N.; Walker, F. J.; Ahn, C.; Leblanc, R. M.; Yan, E. C. Y.* "A Narrow Amide I Vibrational Band Observed by Sum Frequency Generation Spectroscopy Reveals Highly Ordered Structures of a Biofilm Protein at the Air/Water Interface" Chem. Comm., 52, 2956, 2016.
27. Fu, L.; Wang, Z.; Batista, V. S.; Yan, E. C. Y.*"New Insights from Sum Frequency Generation Vibrational Spectroscopy into the Interactions of Islet Amyloid Polypeptides with Lipid Membranes" Journal of Diabetes Research, Article ID 612051, 2015.
28. Culhane, K. J.; Liu, Y.; Cai, Y.; Yan, E. C. Y.*"Transmembrane signal transduction by peptide hormones via family B G protein-coupled receptors" Front. Pharmacol., 6, 264, 2015.
29. Wang, Z.; Fu, L.; Ma, G.; Yan, E. C. Y.*"Broad-Bandwidth Chiral Sum Frequency Generation Spectroscopy for Probing the Kinetics of Proteins at Interfaces" Langmuir, 31, 11384, 2015.
30. Fu, L.*; Wang, Z.; Psciuk, T. B.; Xiao, D.; Batista, V. S.; Yan, E. C. Y.*"Characterization of Parallel β-Sheets at Interfaces by Chiral Sum Frequency Generation Spectroscopy" J. Phys. Chem. Lett. 6, 1310, 2015.
31. Liu, Y.^†; Cai, Y.^†; Liu, W.; Li, X. H.; Rhoades, E.; Yan, E. C. Y.*"Triblock Peptide-Linker-Lipid Molecular Design Improves Potency of Peptide Ligands Targeting Family B G Protein-Coupled Receptors" Chem. Comm. 51, 6157, 2015.
    
    
32. Yan, E. C. Y.*; Wang, Z.; Fu, L. "Proteins at Interfaces Probed by Chiral Sum Frequency Generation Spectroscopy" J. Phys. Chem. B 119, 2769, 2015.
33. Mooney, V.; Skharan, S.; Liu, J.; Guo, Y.; Batista, V. S.; Yan, E. C. Y.* "Kinetics of Thermal Activation of an Ultraviolet Cone Pigment" J. Am. Chem. Soc. 137, 307, 2015.
34. Guo, Y.; Skharan, S.; Liu, J.; Batista, V. S.; Tully, J. C.*; Yan, E. C. Y.* "Role of Unusual Temperature-Dependent Kinetics of Thermal Reactions of Rhodopsin in Vertebrate Dim-Light Vision" Proc. Natl. Acad. Sci. U.S.A. 108, 26111, 2014.
    
    
35. Fu, L.; Wang, Z.; Yan, E. C. Y.* "N-H Stretching Modes Around 3300 Wavenumber From Peptide Backbones Observed by Chiral Sum Frequency Generation Vibrational Spectroscopy" Chirality 22, 306, 2014.
    
    
36. Yan, E. C. Y.*; Fu, L.; Wang, Z.; Liu, W. "Biological Macromolecules at Interfaces Probed by Chiral Sum Frequency Generation Spectroscopy" Special Thematic Issue: Aqueous Interfaces, Chem. Rev. 114, 8471, 2014.
37. Sekharan, S.*; Mooney, V.; Rivalta, I.; Kazmi, M. A.; Neitz, M.; Neitz, J.; Sakmar, T. P.; Yan, E. C. Y.*, Batista, V. B.* "Spectral Tuning of Ultraviolet Cone Pigments: An Interhelical Lock Mechanism" J. Am. Chem. Soc. 135, 19064, 2013.
38. Liu, W.; Wang, Z.; Fu, L.; Leblanc, R. M.; Yan, E. C. Y.* "Lipid Compositions Modulate Fluidity and Stability of Bilayers: Characterization by Surface Pressure and Sum Frequency Generation Spectroscopy" Langmuir 29,15022, 2013.
39. Guo, Y.; Young, K.; Yan, E. C. Y.* Book Chapter: “Guided Inquiry and Project-Based Learning in Biophysical Spectroscopy” in Teaching Bioanalytical Chemistry , Edited by Harvey J. M. Hou, ACS Books, Chapter 13, p261-291, 2013.
    
    
40. Liu, M. Y.^#; Liu, J.; Mehrotra, D.^#; Liu, Y.; Guo, Y.; Baldera-Aguayo, P. A.; Mooney, V.; Nour, A. M.; Yan, E. C. Y.* “Thermal Stability of Rhodopsin and Progression of Retinitis Pigmentosa: A Comparison of S186W and D190N Rhodopsin Mutants” J. Biol. Chem. 288, 17698, 2013.
    
    
41. Wang, Z.; Fu, L.; Yan, E. C. Y.* "C–H Stretch for Probing Kinetics of Self-Assembly into Macromolecular Chiral Structures at Interfaces by Chiral Sum Frequency Generation Spectroscopy" Langmuir 29, 4077, 2013.
42. Fu, L.^†; Xiao, D. Q.^†; Wang, Z.; Batista, V. S.*; Yan, E. C. Y.* “Chiral Sum Frequency Generation for In Situ Probing Proton Exchange in Antiparallel β-Sheets at Interfaces” J. Am. Chem. Soc. 135, 3592, 2013.
43. Mitra, N.^†; Liu, Y.^†; Liu, J.; Serebryany, E.; Mooney, V.; DeVree, B. T.; Sunahara, R. K.; Yan, E. C. Y.* “Calcium-Dependent Ligand Binding and G-protein Signaling of Family B GPCR Parathyroid Hormone 1 Receptor Purified in Nanodiscs” ACS Chem. Biol. 8, 617, 2013.
44. Zhu, G. A.^#; Serebryany, E.^#; Yan, E. C. Y.* "Rational Design of Supramolecular Lipid/Detergent Assemblies for Purification of G Protein-Coupled Receptors" Invited Submission, Encyclopedia of Supramolecular Chemistry, 2012.
    
    
45. Mooney, V.; Szundi, I.; Lewis, J. W.; Yan, E. C. Y.*; Kliger, D. S.* "Schiff Base Protonation Changes in Siberian Hamster Ultraviolet Cone Pigment Photointermediates" Biochemistry 51, 2630, 2012.
46. You, Y. M.^†; Bloomfield, A.^†; Liu, J.; Fu, L.; Herzon, S.*; Yan, E. C. Y.* “Real-Time Kinetics of Surfactant Molecules Transfer between Emulsion Particles Probed by In Situ Second Harmonic Generation Spectroscopy” J. Am. Chem. Soc. 134, 4264, 2012.
47. Xiao, D. Q.^†; Fu, L.^†; Liu, J.; Batista, V. S.*; Yan, E. C. Y.* “Amphiphilic Adsorption of Human Islet Amyloid Polypeptide Aggregates to Lipid/Aqueous Interfaces” J. Mol. Biol. 421, 537, 2012.
48. Serebryany, E.^#; Zhu, G. A.^#; Yan, E. C. Y.* "Artificial membrane-like environments for in vitro studies of purified G-protein coupled receptors" Invited Review, BBA-Biomembrane 1818, 225, 2012.
49. Fu, L.; Wang, Z.; Yan, E. C. Y.* “Chiral Vibrational Structures of Proteins at Interfaces Probed by Sum Frequency Generation Spectroscopy” Invited Submission, Special Issue: Applications of Circular Dichroism, Int. J. Mol. Sci. 12, 9404, 2011.
50. Liu, J; Liu, M. Y.^#; Fu, L.; Zhu, G. A.^#; Yan, E. C. Y.* "Chemical Kinetic Analysis of Thermal Decay of Rhodopsin Reveals Unusual Energetics of Thermal Isomerization and Hydrolysis of Schiff Base" J. Biol. Chem. 286, 38408, 2011.
    
    
51. Liu, J.; Liu, M. Y.^#; Mooney, V.; Bhagat, A.; Nguyen, J.; Yan, E. C. Y.* "Thermal Properties of Rhodopsin: Insight into Molecular Mechanism of Dim-Light Vision"  J. Biol. Chem. 286, 27622, 2011.
    
    
52. Fu, L.; Liu, J.; Yan, E. C. Y.* “Chiral Sum Frequency Generation Spectroscopy for Characterizing Protein Secondary Structures at Interfaces” J. Am. Chem. Soc. 133, 8094, 2011.
53. Wu, W. T.; Mitra, N.; Yan, E. C. Y.; Zhou, S. Q.* "Multifunctional Hybrid Nanogel for Integration of Optical Glucose Sensing and Self-Regulated Insulin Release at Physiological pH" ACS Nano 4, 4831, 2010.
54. Fu, L.; Ma, G.; Yan, E. C. Y.* “In Situ Misfolding of Human Islet Amyloid Polypeptide at Interfaces Probed by Sum Frequency Generation” J. Am. Chem. Soc.132, 5405, 2010.
    
55. Durrell, A. C; Gary, H. B.; Hazari, N.*; Incarvito, C. D.; Liu, J.; Yan, E. C. Y. "Tris (hydroxypropyl) phosphine Oxide: A Chiral Three-Dimensional Material with Non-linear Optical Properties" Cryst. Growth Des.10, 1482, 2010.
    
    
56. Liu, J.; Liu, M. Y.^#; Nguyen,J. B.; Bhagat, A.; Mooney, V.; Yan, E. C. Y.* " Thermal Decay of Rhodopsin Involves both Thermal Isomerization of 11-cis Retinal in the Retinal Binding Site and Hydrolysis of Schiff Base."  J. Am. Chem. Soc. 131, 8750, 2009.
57. Ma, G; Liu, J.; Fu, L.; Yan, E. C. Y.* "Probing Water and Biomolecules at the Air/Water Interface with a Broad-Bandwidth Vibrational Sum Frequency Generation Spectrometer from 3800 to 900 cm^-1" Appl. Spectro. 63, 528. 2009.
    
    

Publications prior to Yale:

1. Ahuja, S.; Eilers, M.; Hirshfeld, A.; Yan, E. C. Y.; Ziliox, M.; Sakmar, T. P.; Sheves, M.; Smith, S. O.* “6-s-cis Conformation and Polar Binding Pocket of the Retinal Chromophore in the Photoactivated State of Rhodopsin” J. Am. Chem. Soc.131, 15160, 2009.
   
   
2. Ahuja, S.; Hornak, V.; Yan, E. C. Y.; Syrett, N.; Goncalves, J. A.; Hirshfeld, A.; Ziliox, M.; Sakmar, T. P.; Sheves, M.; Reeves, P.J.; Smith, S. O.* & Eilers, M. "Helix Movement is Coupled to Displacement of Extracellular Loop 2 in Rhodopsin Activation." Nat. Struct. Mol. Biol.16, 168. 2009.
   
   
3. Ye, S. X.; Köhrer, C.; Huber, T.; Kazmi, M.; Sachdev, P.; Yan, E. C. Y.; Bhagat, A.^#; RajBhandary, U. L.; Sakmar, T. P.* “Site-specific Incorporation of Keto Amino Acids Into Functional G Protein-Coupled Receptors Using Unnatural Amino Acid Mutagenesis” J. Biol. Chem. 283, 1525, 2008.
   
   
4. Yan, E. C. Y.*; Epps, J.; Lewis, J. W.; Szundi, I; Bhagat, A.; Sakmar, T. P.; Kliger, D. S.* “Photointermediates of the Rhodopsin S186A Mutant as a Probe of the Hydrogen Bond Network in the Chromophore Pocket and Counterion Switch” Invited Paper, J. Phy. Chem. C. 111, 8843, 2007.
   
   
5. Vogel, R.*; Siebert, F; Yan, E. C. Y.; Sakmar, T. P.; Hirshfeld, A.; Sheves, M.* “Modulating Rhodopsin Receptor Activation by Altering the pKa of the Retinal Schiff Base” J. Am. Chem. Soc. 128, 10503, 2006.
   
   
6. Ludeke, S; Beck, R.; Yan, E. C. Y.; Sakmar, T. P.; Siebert, F.; Vogel, R.* “The Role of Glu181 in the Photoactivation of Rhodopsin”  J. Mol. Biol.  353, 245, 2005.
   
   
7. Yan, E. C. Y.; Ganim, Z.^#; Kazmi, M. A.; Chang, B. S. W.; Sakmar, T. P.; Mathies, R. A. “Resonance Raman Analysis of the Mechanism of Energy Storage and Chromophore Distortion in the Primary Visual Photoproduct” Biochemistry 43, 10867, 2004.
   
   
8. Yan, E. C. Y.; Kazmi, M.A.; Ganim, Z.^#; Hou, J. M.; Pan, D. H.; Chang, B. S. W.; Sakmar, T. P.; Mathies, R. A  “Retinal counterion Switch in the Photoactivation of G Protein-Coupled Receptor Rhodopsin” Proc. Natl. Acad. Sci. U.S.A. 100, 9262, 2003.
   
   Commentary by Birge, R. R. and Knox, B. E. “Perspectives on the counterion switch-induced photoactivation of the G protein-coupled receptor rhodopsin” Proc. Natl. Acad. Sci. U.S.A. 100, 9105, 2003.
   
   
9. Yan, E. C. Y.; Kazmi, M. A.; De, S.; Chang, B. S. W.; Seibert, C.; Marin, E. P.; Mathies, R. A.; Sakmar, T. P. “Function of Extracellular Loop 2 in Bovine Rhodopsin: Glutamic Acid 181 Modulates Stability and Wavelength Maximal Absorption of Metarhodopsin II” Biochemistry 41, 3620, 2002.
   
   
10. Shang, X. M.; Liu, Y.; Yan, E. C. Y.; Eisenthal, K. B. “Effect of Counterions on Molecular Transport across Liposome Bilayer: Probed by Second Harmonic Generation” J. Phys. Chem. B. 105, 12816, 2001.
    
    
11. Yan, E.C.Y.; Liu, Y.; Eisenthal, K.B. “In-situ Studies of Molecular Transfer between Colloidal Surfaces by Second Harmonic Generation” J. Phys. Chem. B. 105, 8531, 2001.
    
    
12. Liu, Y.; Yan, E. C. Y.; Zhao, X. L.; Eisenthal, K. B. “Surface Potential of Charged Liposomes Determined by Second Harmonic Generation” Langmuir 17, 2063, 2001.
    
    
13. Liu, Y.; Yan, E. C. Y.; Eisenthal, K. B. “Effect of Lipid Composition on Molecular Adsorption and Transport across Liposome Bilayers” Biophys. J. 80, 1004, 2001.
    
    
14. Yan, E. C. Y.; Eisenthal, K. B. “Effects of Cholesterol on Molecular Transport of Organic Cations across Liposome Bilayers Probed by Second Harmonic Generation” Biophys. J. 79, 898, 2000.
    
    
15. Yan, E. C. Y.; Eisenthal, K. B. “Rotational Dynamics of Anisotropic Particles Studied by Second Harmonic Generation” J. Phys. Chem. B. 104, 6686, 2000.
    
    
16. Yan, E. C. Y.; Eisenthal, K. B. “Probing the Interface of Microscopic Clay Particles in Aqueous Solution by Second Harmonic Generation” J. Phys. Chem. B. 103, 6056, 1999.
    
    
17. Yan, E. C. Y.; Liu, Y.; Eisenthal, K. B. “New Method for Determination of Surface Potential of Microscopic Particles by Second Harmonic Generation” J. Phys. Chem. B 102, 6331, 1998.
    
    
18. Wang, H. F.; Yan, E. C. Y.; Liu, Y.; Eisenthal, K.B. “Energetics and Population of Molecules at Microscopic Liquid and Solid Surfaces” J. Phys. Chem. 102, 4446, 1998. .
    
    
19. Wang, H. F.; Borguet, E.; Yan, E. C. Y.; Zhang, D.; Gutow, J.; Eisenthal, K. B. “Molecules at Liquid and Solid Surfaces” Langmuir 14, 1472, 1998.
    
    
20. Wang, H. F.; Yan, E. C. Y.; Borguet, E.; Eisenthal, K. B. “Second Harmonic Generation from the Surface of Centrosymmetric Particles in Bulk Solution” Chem. Phys. Letts. 259, 15, 1996.
    
    
21. Wu, C.; Yan, C. Y.^# “Studies of the Swelling and Drying Kinetics of Thin Gel Films by In-Situ Interferometry” Macromolecules 27, 4516, 1994.