2016   2015   2014   2013   2012   2011   2010   2009   2008   prior to 2007

76. Sequence directionality dramatically affects LCST behavior of elastin-like polypeptides
Nan K. Li, Stefan Roberts, Felipe Garcia Quiroz, Ashutosh Chilkoti, and Yaroslava G. Yingling
Biomacromolecules (2018) DOI: 10.1021/acs.biomac.8b00099
75. Hairy Graphenes: Wrapping Nanocellulose Nets around Graphene Oxide Sheets
Rui Xiong, Ho Shin Kim, Lijuan Zhang, Volodymyr F. Korolovych, Shuaidi Zhang, Yaroslava G. Yingling, and Vladimir V. Tsukruk
Angewandte Chemie International Edition (2018) DOI:10.1002/anie.201803076
74. Cellulose synthase ‘class specific regions’ are intrinsically disordered and functionally undifferentiated
Tess R. Scavuzzo-Duggan, Arielle M. Chaves, Abhishek Singh, Latsavongsakda Sethaphong, Erin Slabaugh, Yaroslava G. Yingling, Candace H. Haigler, and Alison W. Roberts
Journal of Integrative Plant Biology 53 (2018) 5766-5776 DOI: 10.1111/jipb.12637
73. Interfacial Stability of Graphene-based Surfaces in water and organic solvents
Ho Shin Kim, Thomas J. Oweida, and Yaroslava G. Yingling
Journal of Materials Science (Invited Special Issue)(2018) JMSC-D-17-05546R1
72. Functional Modification of Silica through Enhanced Adsorption of Elastin-Like Polypeptide Block Copolymers
Linying Li, Nan K Li, Qing Tu, Owen Im, Chia-Kuei Mo, Wei Han, William H. Fuss, Nick J. Carroll, Ashutosh Chilkoti, Yaroslava G. Yingling, Stefan Zauscher and Gabriel P. López
Biomacromolecules (2018) DOI: 10.1021/acs.biomac.7b01307
71. Template-Guided Assembly of Silk Fibroin on Cellulose Nanofibers for Robust Nanostructures with Ultrafast Water Transport
Rui Xiong, Ho Shin Kim, Shuaidi Zhang, Sunghan Kim, Volodymyr F. Korolovych, Ruilong Ma, Yaroslava G. Yingling, Canhui Lu, and Vladimir V. Tsukruk
ACS Nano (2017) DOI: 10.1021/acsnano.7b04235
70. Salt responsive morphologies of ssDNA-based triblock polyelectrolytes in semi-dilute regime: effect of volume fractions and polyelectrolyte length
Nan K. Li, Huihui Kuang, William H. Fuss, Stefan Zauscher, Efrosini Kokkoli and Yaroslava G. Yingling
Macromolecular Rapid Communications 38 (2017) 1700422 DOI: 10.1002/marc.201700422
69. Effect of C60 Adducts on the Dynamic Structure of Aromatic Solvation Shells
James S. Peerless, G. Hunter Bowers, Albert L. Kwansa, Yaroslava G. Yingling
Chemical Physics Letters 678 (2017) 79-84 DOI: 10.1016/j.cplett.2017.04.010
68. Interfacial Mechanical Properties of Graphene on Self-Assembled Monolayers: Experiments and Simulations
Qing Tu, Ho Shin Kim, Thomas J. Oweida, Zehra Parlak, Yaroslava G Yingling, and Stefan Zauscher
ACS Applied Materials and Interfaces 9 (2017) 10203-10213 DOI: 10.1021/acsami.6b16593
67. Effect of graphene oxidation rate on adsorption of poly-thymine single stranded DNA
Hoshin Kim, Barry L. Farmer, and Yaroslava G. Yingling
Advanced Materials Interfaces (2017) DOI: 10.1002/admi.201601168
66. Advances in Molecular Modeling of Nanoparticle-Nucleic Acid Interfaces
Jessica A. Nash, Albert L. Kwansa, James S. Peerless, Hoshin Kim, Yaroslava G. Yingling
Bioconjugate Chemistry 28 (2017) 3-10


65. Fluorescence blinking as an output signal for biosensing
Brandon Roark, Jenna A. Tan, Anna Ivanina, Morgan Chandler, Jose Castaneda, Ho Shin Kim, Shriram Jawahar, Mathias Viard, Strahinja Talic, Kristin L. Wustholz, Yaroslava G Yingling, Marcus Jones, and Kirill A Afonin
ACS Sensors 1 (2016) 1295-1300 DOI: 10.1021/acssensors.6b00352
64. Binding of single stranded nucleic acids to cationic ligand functionalized gold nanoparticles
Jessica A. Nash, Tasha L. Tucker, William Therriault, Yaroslava G. Yingling
Biointerphases 11 (2016) 04B305
63. Silk Fibroin-Substrate Interactions at Heterogeneous Nanocomposite Interfaces
A. M. Grant, Ho Shin Kim, Trisha L. Dupnock, K. Hu, Yaroslava G. Yingling, Vladimir V. Tsukruk
Advanced Functional Materials 26 (2016) 6380-6392
62. Emulsion-based RIR-MAPLE deposition of conjugated polymers: primary solvent effect and its implications on organic solar cell performance
Wangyao Ge, Nan K. Li, Ryan D. McCormick, Eli Lichtenberg, Yaroslava G. Yingling and Adrienne D. Stiff-Roberts
ACS Applied Materials and Interfaces 8 (2016) 19494-19506
61. Comparative structural and computational analysis supports eighteen cellulose synthases in the plant cellulose synthesis complex
B. Tracy Nixon, Katayoun Mansouri, Abhishek Singh, Juan Du, Jonathan K. Davis, Jung-Goo Lee, Erin Slabaugh, Venu G. Vandavasi, Hugh O'Neill, Eric M. Roberts, Alison W. Roberts, Yaroslava G. Yingling, Candace H. Haigler
Scientific Reports 6 (2016) 28696
60. Role of Imidazolium Cation on Structure and Activity of Candida antarctica Lipase B Enzyme in Ionic Liquids
Ho Shin Kim, Doyoung Eom, Yoon-Mo Koo, and Yaroslava G. Yingling
Physical Chemistry Chemical Physics 18 (2016) 22062-22069 DOI: 10.1039/C6CP02355J
59. Sequence dependent interaction of single stranded DNA with graphitic flakes: atomistic molecular dynamics simulations
Ho Shin Kim, Sabrina M. Huang, Yaroslava G. Yingling
MRS Advances (2016) DOI: 10.1557/adv.2016.91
58. Design of potent and controllable anticoagulants using DNA aptamers and nanostructures
Abhijit Rangnekar, Jessica A Nash, Bethany Goodfred, Yaroslava G. Yingling, and Thomas LaBean
Molecules 21 (2016) 202
57. LCST Behavior is Manifested in a Single Molecule: Elastin-like polypeptide (VPGVG)n
Binwu Zhao, Nan K. Li, Yaroslava G. Yingling, and Carol K. Hall
Biomacromolecules 17 (2016) 111-118
56. Prediction of the structures of the plant-specific regions of vascular plant cellulose synthases and correlated functional analysis
Latsavongsakda Sethaphong, Jonathan K. Davis, Erin Slabaugh, Abhishek Singh, Candace H. Haigler, Yaroslava G. Yingling
Cellulose 23 (2016) 145-161
55. Na+ Dependent Anion Transport by a Barley Efflux Protein Revealed through an Integrative Platform
Yagnesh Nagarajan, Jay Rongala, Sukanya Luang, Abhishek Singh, Nadim Shadiac, Julie Hayes, Tim Sutton, Matthew Gilliham, Stephen Tyerman, Gordon McPhee, Nicolas H. Voelcker, Hayden D. T. Mertens, Nigel Kirby, Jung-Goo Lee, Yaroslava G. Yingling, Maria Hrmova
Plant Cell 28 (2016) 202-218


54. Fullerenes in Aromatic Solvents: Correlation between Solvation Shell Structure, Solvate Formation, and Solubility
James S. Peerless, G. Hunter Bowers, Albert L. Kwansa, and Yaroslava G. Yingling
J. Phys. Chem. B 119 (2015) 15344–15352
53. Characterization of nucleic acid compaction with histone-mimic nanoparticles through all-atom molecular dynamics
Jessica A. Nash, Abhishek Singh, Nan K. Li, and Yaroslava G. Yingling
ACS Nano 9 (2015) 12374-12382
52. Microtubules and cellulose biosynthesis: the emergence of new players
Shundai Li, Lei Lei, Yaroslava G. Yingling, and Ying Gu
Current Opinion in Plant Biology 28 (2015) 76-82
51. Cellulose synthase interactive 1 is required for a fast recycling of cellulose synthase complexes to the plasma membrane in Arabidopsis
Lei Lei, Abhishek Singh, Logan Bashline, Shundai Li, Yaroslava G. Yingling, and Ying Gu
Plant Cell (2015) doi: 10.1105/tpc.15.00442
50. Prediction of solvent-induced morphological changes of polyelectrolyte diblock copolymer micelles
Nan K. Li, William H. Fuss, L. Tang, R. Gu, A. Chilkoti, S. Zauscher, Yaroslava G. Yingling
Soft Matter 11 (2015) 8236-8245
49. How Cellulose Elongates - a QM/MM Study of the Molecular Mechanism of Cellulose Polymerization in Bacterial CESA
H. Yang, J. Zimmer, Y.G. Yingling, J. D. Kubicki
Journal of Physical Chemistry B 119 (2015) 6525-6535
48. An Implicit Solvent Ionic Strength (ISIS) Method to Model Polyelectrolyte Systems with Dissipative Particle Dynamics
N. K. Li, W. H. Fuss, Y. G. Yingling
Macromolecular Theory and Simulations 24 (2015) 7-12.


47. Molecular description of the LCST behavior of an elastin-like poly-peptide
N. K. Li, F. García Quiroz, C. K. Hall, A. Chilkoti, Y. G. Yingling
Biomacromolecules 15 (2014) 3522-3530
46. Computational and genetic evidence that different structural conformations of a non-catalytic region affect the function of plant cellulose synthase
E. Slabaugh, L. Sethaphong, C. Xiao, J. Amick, C. T. Anderson, C. H. Haigler, Y. G. Yingling
Journal of Experimental Botany 65 (2014) 6645-6653.
45. Progress in molecular modeling of DNA materials
N. K. Li, H. S. Kim, J. A. Nash, M. Lim, Y. G. Yingling
Molecular Simulation 40 (2014) 777-783.
44. Enzymatic polymerization of high molecular weight DNA amphiphiles that self-assemble into star-like micelles
L. Tang, V. Tjong, N. Li, Y. G. Yingling, A. Chilkoti, S. Zauscher
Advanced Materials 26 (2014) 3050-3054.
43. The relationship between enhanced enzyme activity and structural dynamics in ionic liquids: a combined computational and experimental study
H. S. Kim, S. H. Ha, L. Sethaphong, Y.-M. Koo, Y. G. Yingling
Physical Chemistry Chemical Physics 16 (2014) 2944-2953.


42. Cellulose synthases: new insights from crystallography and modeling
E. Slabaugh, J. K. Davis, C. H. Haigler, Y. G. Yingling, J. Zimmer
Trends in Plant Science 19 (2013) 99-106.
41. Correlating fullerenes diffusion with polythiophene morphology: molecular dynamics simulations
R. C. Pani, B. D. Bond, G. Krishnan, Y. G. Yingling
Soft Matter 9 (2013) 10048-10055
40. Tertiary model of a plant cellulose synthase
L. Sethaphong, C. H. Haigler, J. D. Kubicki, J. Zimmer, D. Bonetta, S. DeBolt, Y. G. Yingling
Proc. Natl. Acad. Sci. USA 110 (2013) 7512-7517
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39. X3DBio2: A Visual Analysis Tool for Biomolecular Structure Comparison
H. Yi, S. Thakur, L. Sethaphong, Y. G. Yingling
Proc. SPIE 8654, VDA (2013) 86540W doi:10.1117/12.2002626


38. The effect of point mutations on structure and mechanical properties of collagen-like fibril: a molecular dynamics study
A. E. Marlowe, A. Singh, Y. G. Yingling
Materials Science and Engineering C 32 (2012) 2583-2588
37. Weakly Charged Cationic Nanoparticles Induce DNA Bending and Strand Separation
J. G. Railsback, A. Singh, R. C. Pearce, T. E. McKnight, R. Collazo, Z. Sitar, Y. G. Yingling, A. Melechko
Advanced Materials 24 (2012) 4261-4265
36. Role of Solvent and Dendritic Architecture on the Redox Core Encapsulation
R. C. Pani, Y. G. Yingling
J. Phys. Chem. A 116 (2012) 7593-7599
35. X3DBio: A Visual Analysis Tool for Biomolecular Structure Exploration
H. Yi, A. Singh, Y. G. Yingling
Proc. SPIE 8294 (2012) 82940S-1-8
34. The role of hydrogen bonding in water-mediated glucose solubility in ionic liquids
H. S. Kim, R. Pani, S. H. Ha, Y.-M. Koo, Y. G. Yingling
Journal of Molecular Liquids 166 (2012) 25-30
33. Molecular dynamics simulaitons of bio-nano materials
M. A. Pasquinelli, Y. G. Yingling
Encyclopedia of Nanotechnology (2012) pp.1454-1463


32. Theoretical perspective on properties of DNA-functionalized surfaces
A. Singh, H. Eksiri, Y. G. Yingling
Journal of Polymer Science B: Polymer Physics 49 (2011) 1563-1627
31. Interactions of cations with RNA loop-loop complexes
A. Singh, L. Sethaphong, Y. G. Yingling
Biophysical Journal 101 (2011) 727
30. Simulations of stretching single stranded DNA
A. Singh, Y. G. Yingling
Mater. Res. Soc. Proc. (2011) 1301, mrsf10-1301-oo10-06 doi:10.1557/opl.2011.569.


29. Effect of Oligonucleotide Length on the Assembly of DNA Materials: Molecular Dynamics Simulations of Layer-by-Layer DNA Films
A. Singh, S. Snyder, L. Lee, A. P. R. Johnston, F. Caruso, Y. G. Yingling
Langmuir 26 (2010) 17339-17347
28. The sequence of HIV-1 TAR RNA helix controls cationic distribution
L. Sethaphong, A. Singh, A. E. Marlowe, Y. G. Yingling
J. Phys. Chem. C 114 (2010) 5506-5512


27. Comparing ion distributions around RNA and DNA helical and loop-loop motifs
A. V. Semichaevsky, A. E. Marlowe, Y. G. Yingling
Mater. Res. Soc. Symp. Proc. Vol. 1130 (2009) W05-05
26. RNA molecular recognition and self-assembly into nanoparticles
Abhishek Singh and Yaroslava G. Yingling
Proc. International Institute of Informatics and Systemics 1 (2009) 6-7
25. Computational Elucidation of the self-assembly of nucleic acids into novel materials
Stacy Snyder and Yaroslava G. Yingling
Proc. International Institute of Informatics and Systemics 1 (2009) 8-9


24. The 3' Proximal Translational Enhancer of Turnip Crinkle Virus Binds to 60S Ribosomal Subunits
V. A. Stupina, A. Meskauskas, J. C. Mccormack, Y. G. Yingling, B. A. Shapiro, J. D. Dinman, A. E. Simon
RNA 14 (2008) 2379-2393
23. Structural Domains Within the 3' UTR of Turnip Crinkle Virus
J. C. McCormack, X. Yuan, Y. G. Yingling, W. Kasprzak, R. E. Zamora, B. A. Shapiro, A. E. Simon
Journal of Virology 82 (2008) 8706-8720
22. Protocols for the In silico Design of RNA Nanostructures
B. A. Shapiro, E. Bindewald, W. Kasprzak, Y. G. Yingling
Nanostructure Design Methods and Protocols, Methods in Molecular Biology series Vol. 474, E. Gazit and R. Nussinov, Eds., (Humana Press, 2008)
21. RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign
E.Bindewald, R. Hayes, Y. G. Yingling, W. Kasprzak, B. A. Shapiro
Nucleic Acids Res. 36 (2008) D392-D397


20. Computational design of an RNA hexagonal nano-ring and an RNA nanotube
Y. G. Yingling, B. A. Shapiro
Nano Letters 7 (2007) 2328-2334
19. Bridging the gap in RNA structure prediction
B. A. Shapiro, Y. G. Yingling, W. Kasprzak, E. Bindewald
Current Opinion in Structural Biology 17 (2007) 157-165
18. Incorporation of chemical reactions into UV photochemical ablation of coarse-grained material
Y. G. Yingling, B. J. Garrison
Applied Surface Science 253 (2007) 6377-6381
17. Computational Investigation into the Mechanisms of UV Ablation of Poly (methyl methacrylate)
M. Prasad, P. F. Conforti, B. J. Garrison, Y. G. Yingling
Applied Surface Science 253 (2007) 6382-6385
16. The Impact of Dyskeratosis Congenita Mutations on Structure and Dynamics of the Telomerase RNA Pseudoknot Domain
Y. G. Yingling, B. A. Shapiro
J. Biomol. Str. Dynam. 24 (2007) 303-320
15. Computational studies of ultraviolet ablation of poly(methyl methacrylate)
P. F. Conforti, Y. G. Yingling and B. J. Garrison
Journal of Physics: C 59 (2007) 322-327


14. The Prediction of the Wild-type Telomerase RNA Pseudoknot Structure and the Pivotal Role of a Bulge in its Formation
Y. G. Yingling, B. A. Shapiro
J Mol Graph Model 25 (2006) 261-274
13. Structural and Dynamical Classification of RNA Single-Base Bulges for Nanostructure Design
W. A. Hastings, Y. G. Yingling, G. S. Chirikjian, B. A. Shapiro
J Comp Theor Nanoscience 3 (2006) 63-77


12. Coarse-Grained Model of the Interaction of Light with Polymeric Material: Onset of Ablation
Y. G. Yingling, B. J. Garrison
Journal of Physical Chemistry B 109 (2005) 16482-16489
11. Dynamic Behavior of the Telomerase RNA Hairpin Structure and Its Relationship to Dyskeratosis Congenita
Y. G. Yingling, B. A. Shapiro
Journal of Molecular Biology 348 (2005) 27


10. Theoretical Investigation of Laser Pulse Width Dependence in Thermal Confinement Regime
Y. G. Yingling, P. F. Conforti, B. J. Garrison
Appl. Phys. A 79 (2004) 757
9. Coarse Grained Chemical Reaction Model
Y. G. Yingling and B. J. Garrison
J. Phys. Chem. B 108 (2004) 1815
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8. Photochemical Ablation of Organic Solids
Y. G. Yingling and B. J. Garrison
Nucl. Instrum. Methods Phys. Research B 203 (2003) 188
7. Computer Simulation of Laser Ablation of Molecular Substrates
L. V. Zhigilei, E. Leveugle, B. J. Garrison, Y. G. Yingling, M. I. Zeifman
Chemical Reviews 103 (2003) 321
6. MD Simulations of MALDesorption - Connections to Experiment
L. V. Zhigilei, Y. G. Yingling, T. E. Itina, T. A. Schoolcraft, B. J. Garrison
Int. J. Mass Spectrom. Ion Processes 226 (2003) 85
5. Big Molecule Ejection - SIMS vs. MALDI
B. J. Garrison, A. Delcorte, L. V. Zhigilei, T. E. Itina, K. D. Krantzman, Y. G. Yingling, C. M. McQuaw, E. J. Smiley, N. Winograd
Applied Surface Science 69-71 (2003) 203


4. Photochemical induced effects in material ejection in laser ablation
Y. G. Yingling and B. J. Garrison
Chem. Phys. Lett. 364 (2002) 237


3. The Role of the Photochemical Fragmentation in Laser Ablation
Y. G. Yingling, L. V. Zhigilei, B. J. Garrison
J. Photochemistry and Photobiology A: Chemistry 145 (2001) 173
2. Photochemical Fragmentation Processes in Laser Ablation of Organic Solids
Y. G. Yingling, L. V. Zhigilei, B. J. Garrison
Nucl. Instrun. Methods Phys. Research B 180 (2001) 171
1. Laser Ablation of bicomponent Systems: A Probe of Molecular Ejection Mechanisms
Y. G. Yingling, L. V. Zhigilei, B. J. Garrison, A. Koubenakis, J. Labrakis, S. Georgiou
Appl. Phys. Lett. 78 (2001) 1631