2013 Publications

Journal Papers

  1. T. A. Addington, R. W. Mertz, J. B. Siegel, J. M. Thompson, A. J. Fisher, V. Filkov, N. M. Fleischman, A. A. Suen, C. Zhang and M. D. Toney, "Janus: Prediction and Ranking of Mutations Required for Functional Interconversion of Enzymes", J. Mol. Biol. 425, 1378 (2013) doi: 10.1016/j.jmb.2013.01.034

  2. N. B. Aetukuri, A. X. Gray, M. Drouard, M. Cossale, L. Gao, A. H. Reid, R. Kukreja, H. Ohldag, C. A. Jenkins, E. Arenholz, K. P. Roche, H. A. Dürr, M. G. Samant and S. S. P. Parkin, "Control of the Metal-Insulator Transition in Vanadium Dioxide by Modifying Orbital Occupancy", Nat. Phys. 9, 661  (2013) doi: 10.1038/NPHYS2733

  3. H. S. Ahn, J. Yano and T. D. Tilley, "Photocatalytic Water Oxidation by Very Small Cobalt Domains on a Silica Surface", Energ. Environ. Sci. 6, 3080 (2013) doi: 10.1039/C3EE42067A

  4. H. B. Akkerman, S. C. B. Mannsfeld, A. P. Kaushik, E. Verploegen, L. Burnier, A. P. Zoombelt, J. D. Saathoff, S. Hong, S. Atahan-Evrenk, X. Liu, A. Aspuru-Guzik, M. F. Toney, P. Clancy and Z. Bao, "Effects of Odd–Even Side Chain Length of Alkyl-Substituted Diphenylbithiophenes on First Monolayer Thin Film Packing Structure", J. Am. Chem. Soc. 135, 11006 (2013) doi: 10.1021/ja400015e

  5. J. Amoroso, J. Marra, S. D. Conradson, M. Tang and K. Brinkman, "Melt Processed Single Phase Hollandite Waste Forms for Nuclear Waste Immobilization: Ba1.0Cs0.3A2.3Ti5.7O16; A = Cr, Fe, Al", J. Alloys Compd. 584, 590 (2013) doi: 10.1016/j.jallcom.2013.09.087

  6. C. W. N. Anderson, S. M. Bhatti, J. Gardea-Torresdey and J. Parsons, "In Vivo Effect of Copper and Silver on Synthesis of Gold Nanoparticles inside Living Plants", ACS Sustainable Chem. Eng. 1, 640 (2013) doi: 10.1021/sc400011s

  7. M. Anderson, E. P. Schultz, M. Martick and W. G. Scott, "Active-site Monovalent Cations Revealed in a 1.55 Å Resolution Hammerhead Ribozyme Structure", J. Mol. Biol. 425, 3790 (2013), doi: 10.1016/j.jmb.2013.05.017

  8. J. C. Andrews and B. M. Weckhuysen, "Hard X-ray Spectroscopic Nano-Imaging of Hierarchical Functional Materials at Work", ChemPhysChem 14, 3655 (2013) doi 10.1002/cphc.201300529

  9. L. D. Andrews, T. D. Fenn and D. Herschlag, "Ground State Destabilization by Anionic Nucleophiles Contributes to the Activity of Phosphoryl Transfer Enzymes", PLOS Biology 11, e1001599 (2013) doi: 10.1371/journal.pbio.1001599

  10. G. N. Ankah, S. Meimandi and F. U. Renner, "Dealloying of Cu3Pd Single Crystal Surfaces", J. Electrochem. Soc. 160, C390 (2013) doi: 10.1149/2.079308jes

  11. Y. Arai and K. J. Livi, "Underassessed Phosphorus Fixation Mechanisms in Soil Sand Fraction", Geoderma 192, 422 (2013) doi: 10.1016/j.geoderma.2012.06.021

  12. L. R. Aramburo, Y. Liu, T. Tyliszczak, F. M. F. de Groot, J. C. Andrews and B. M. Weckhuysen, "3D Nanoscale Chemical Imaging of the Distribution of Aluminum Coordination Environments in Zeolites with Soft X-ray Microscopy", ChemPhysChem 14, 496 (2013) doi: 10.1002/cphc.201201015

  13. V. Armel, J. Rivnay, G. Malliaras and B. Winther-Jensen, "On the Unexpected Interaction between PEDOT and Phosphornium Ionic Liquids", J. Am. Chem. Soc. 135, 11309 (2013) doi: 10.1021/ja405032c

  14. R. S. Ashraf, B. C. Schroeder, H. A. Bronstein, Z. Huang, S. Thomas, R. J. Kline, C. J. Brabec, P. Rannou, T. D. Anthopoulos and J. R. Durrant, "The Influence of Polymer Purification on Photovoltaic Device Performance of a Series of Indacenodithiophene Donor Polymers", Adv. Mater. 25, 2029 (2013) doi: 10.1002/adma.201300027

  15. S. Aspeslagh, M. Nemčovič, N. Pauweis, K. Venken, J. Wang, S. Van Calenbergh, D. M. Zajonc and D. Elewaut, "Enhanced TCR Footprint by a Novel Glycolipid Increases NKT-Dependent Tumor Protection", J. Immunol. 191, 2916 (2013) doi: 10.4049/?jimmunol.1203134

  16. K. Awwad, A. Desai, C. Smith and M. Sommerhalter, "Structural and Functional Characterization of a Noncanonical Nucleoside Triphosphate Pyrophosphatase from Thermotoga maritima", Acta Crystallogr. D 69, 184 (2013) doi: 10.1107/S0907444912044630

  17. C. Aydin, A. Kulkarni, M. Chi, N. D. Browning and B. C. Gates, "Three-Dimensional Structural Analysis of MgO-Supported Osmium Clusters by Electron Microscopy with Single-Atom Sensitivity", Angew. Chem., Int. Ed. Engl. 52, 5262 (2013) doi: 10.1002/anie.201300238

  18. W. E. Bailey, C. Cheng, R. Knut, O. Karis, S. Auffret, S. Zohar, D. Keavney, P. Warnicke, J.-S. Lee and D. A. Arena, "Detection of Microwave Phase Variation in Nanometre-scale Magnetic Heterostructures", Nat. Commun. 4, 2025 (2013) doi: 10.1038/ncomms3025

  19. S. R. Barberie, T. A. Cahill, C. F. Cahill, T. M. Cahill, C. R. Iceman and D. E. Barnes, "UC Davis XIPline ("zipline") End-Station at the Stanford Synchrotron Radiation Lightsource: Development and Experimental Results", Nucl. Instrum. Meth. Phys. Res. A 729, 930 (2013) doi: 10.1016/j.nima.2013

  20. J. R. Bargar, K. H. Williams, K. M. Campbell, P. E. Long, J. E. Stubbs, E. I. Suvorova, J. S. Lezama-Pacheco, D. S. Alessi, M. Stylo, S. M. Webb, J. A. Davis, D. E. Giammar, L. Y. Blue and R. Bernier-Latmani, "Uranium Redox Transition Pathways in Acetate-amended Sediments", Proc. Natl. Acad. Sci. USA 110, 4506 (2013) doi: 10.1073/pnas.1219198110

  21. I. H. Barrette-Ng, S.-C. Wu, W.-M. Tjia, S.-L. Wong and K. K. S. Ng, "The Structure of the SBP-Tag-Streptavidin Complex Reveals a Novel Helical Scaffold Bridging Binding Pockets on Separate Subunits", Acta Crystallogr. D 69, 879 (2013) doi: 10.1107/S0907444913002576

  22. J. A. Bartelt, Z. M. Beiley, E. T. Hoke, W. R. Mateker, J. D. Douglas, B. A. Collins, J. R. Tumbleston, K. R. Graham, A. Amassian, H. Ade, J. M. J. Fréchet, M. F. Toney and M. D. McGehee, "The Importance of Fullerene Percolation in the Mixed Regions of Polymer-Fullerene Bulk Heterojunction Solar Cells", Adv. Eng. Mater. 3, 364  (2013) doi: 10.1002/aenm.201200637

  23. D. Batabyal, H. Li and T. L. Poulos, "Synergistic Effects of Mutations in Cytochrome P450cam Designed to Mimic CYP101D1", Biochemistry 52, 5396 (2013) doi: 10.1021/bi400676d

  24. D. Batabyal and T. L. Poulos, "Crystal Structures and Functional Characterization of Wild-Type CYP101D1 and Its Active Site Mutants", Biochemistry 52, 8898 (2013) doi: 10.1021/bi401330c

  25. E. L. Baxter, J. A. Zuris, C. Wang, P. L. T. Vo, H. L. Axelrod, A. E. Cohen, M. L. Paddock, R. Nechushtai, J. N. Onuchic and P. A. Jennings, "Allosteric Control in a Metalloprotein Dramatically Alters Function", Proc. Natl. Acad. Sci. USA 110, 948 (2013) DOI: 10.1073/pnas.1208286110

  26. E. C. Benson, M. D. Sampson, K. A. Grice, J. M. Smieja, J. D. Froehlich, D. Friebel, J. A. Keith, E. A. Carter, A. Nilsson and C. P. Kubiak, "The Electronic States of Rhenium Bipyridyl Electrocatalysts for CO2 Reduction as Revealed by X-ray Absorption Spectroscopy and Computational Quantum Chemistry", Angew. Chem., Int. Ed. Engl. 52, 4841 (2013) doi: 10.1002/anie.201209911

  27. M. Beye, T. Anniyev, R. Coffee, M. Dell'Angela, A. Föhlisch, J. Gladh, T. Katayama, S. Kaya, O. Krupin, A. Mogelhoj, A. Nilsson, D. Nordlund, J. K. Nrskov, H. Öberg, H. Ogasawara, L. G. M. Pettersson, W. F. Schlotter, J. A. Sellberg, F. Sorgenfrei, J. J. Turner, M. Wolf, W. Wurth and H. Öström, "Selective Ultrafast Probing of Transient Hot Chemisorbed and Precursor States of CO on Ru(0001)",  Phys. Rev. Lett. 110, 186101 (2013) doi: 10.1103/PhysRevLett.110.186101

  28. M. Bhattacharya, M. Toth, C. A. Smith and S. B. Vakulenko, "Bulky "Gatekeeper" Residue Changes the Co-Substrate Specificity in Aminoglycoside 2"-Phosphotransferase IIa", Antimicrob. Agents Ch. 57, 3763 (2013) doi: 10.1128/AAC.00381-13

  29. Y. Bi, S. P. Hyun, R. Kukkadapu and K. F. Hayes, "Oxidative Dissolution of UO2 in a Simulated Groundwater Containing Synthetic Nanocrystalline Mackinawite", Geochim. Cosmochim. Acta 102, 175 (2013) doi: 10.1016/j.gca.2012.10.032

  30. H. Bie, J. Yin, X. He, A. R. Kermode, E. D. Goddard-Borger, S. G. Withers and M. N. G. James, "Insights into Mucopolysaccharidosis I from the Structure and Action of α-L-iduronidase", Nat. Chem. Biol. 9, 739 (2013) doi: 10.1038/nchembio.1357

  31. E. A. Blaber, N. Dvorochkin, C. Lee, J. S. Alwood, R. Yousuf, P. Pianetta, R. K. Globus, B. P. Burns and E. A. C. Almeida, "Microgravity Induces Pelvic Bone Loss through Osteoclastic Activity, Osteocytic Osteolysis, and Osteoblastic Cell Cycle Inhibition by CDKN1a/p21", PLoS One 8, e61372 (2013) doi: 10.1371/journal.pone.0061372

  32. J. A. Blair, Q. Xu, W. S. Childers, I. I. Mathews, J. W. Kern, M. Eckart, A. M. Deacon and L. Shapiro, "Branched Signal Writing of an Essential Bacterial Cell-Cycle Phosphotransfer Protein", Structure 21, 1590 (2013) doi: 10.1016/j.str.2013.06.024

  33. L. K. Blusch, K. E. Craigo, V. Martin-Diaconescu, E. Bill, A. B. McQuarters, S. Dechert, S. DeBeer, N. Lehnert and F. Meyer, "Hidden Non-Innocence in an Expanded Porphyrin: Electronic Structure of the Siamese-Twin Porphyrin’s Dicopper Complex in Different Oxidation States", J. Am. Chem. Soc. 135, 13892 (2013) doi: 10.1021/ja406176e

  34. U. Boesenberg, F. Meirer, Y. Liu, A. K. Shukla, R. Dell'Anna, T. Tyliszczak, G. Chen, J. C. Andrews, T. J. Richardson, R. Kostecki and J. Cabana, "Mesoscale Phase Distribution in Single Particles of LiFePO4 Following Lithium Deintercalation", Chem. Mater. 25, 1664 (2013) doi: 10.1021/cm400106k

  35. J. A. Bogart, A. J. Lewis, S. A. Medling, N. A. Piro, P. J. Carroll, C. H. Booth and E. J. Schelter, "Homoleptic Cerium(III) and Cerium(IV) Nitroxide Complexes: Significant Stabilization of the 4+ Oxidation State", Inorg. Chem. 52, 11600 (2013) doi: 10.1021/ic401974t

  36. C. H. Booth, Y. Jiang, S. A. Medling, D. L. Wang and A. L. Costello, "Self-Irradiation Damage to the Local Structure of Plutonium and Plutonium Intermetallics", J. Appl. Phys. 113, 0935201 (2013) doi: 10.1063/1.4794016

  37. Z. A. Bornholdt, T. Noda, D. M. Abelson, P. Halfmann, M. R. Wood, Y. Kawaoka and E. O. Saphire, "Structural Rearrangement of Ebola Virus VP40 Begets Multiple Functions in the Virus Life Cycle", Cell 154, 763 (2013) doi: 10.1016/j.cell.2013.07.015

  38. A. C. Bowman, J. England, S. Sproules, T. Weyhermüller and K. Wieghardt, "Electronic Structures of Homoleptic [Tris(2,2'-bipyridine)M]n Complexes of the Early Transition Metals (M = Sc, Y, Ti, Zr, Hf, V, Nb, Ta; n = 1+, 0, 1–, 2–, 3-): An Experimental and Density Functional Theoretical Study", Inorg. Chem. 52, 2242 (2013) doi: 10.1021/ic302799s

  39. T. P. Brennan, J. T. Tanskanen, J. R. Bakke, W. H. Nguyen, D. Nordlund, M. F. Toney, M. D. McGehee, A. Sellinger and S. Bent, "Dynamical Orientation of Large Molecules on Oxide Surfaces and Its Implications for Dye-Sensitized Solar Cells", Chem. Mater. 25, 4354 (2013) doi: 10.1021/cm402609k

  40. S. Brinkmann-Chen, T. Flock, J. K. B. Cahn, C. D. Snow, E. M. Brustad, J. A. McIntosh, P. Meinhold, L. Zhang and F. H. Arnold, "General Approach to Reversing Ketol-Acid Reductoisomerase Cofactor Dependence from NADPH to NADH", Proc. Natl. Acad. Sci. USA 110, 10946 (2013) doi: 10.1073/pnas.1306073110

  41. G. R. Brock, G. Kim, A. R. Ingraffea, J. C. Andrews, P. Pianetta and M. C. H. van der Meulen, "Nanoscale Examination of Microdamage in Sheep Cortical Bone Using Synchrotron Radiation Transmission X-ray Microscopy", PLoS One 8, e57942 (2013) doi: 10.1371/journal.pone.0057942

  42. J. Brock, P. G. Board and A. J. Oakley, "Structural Insights into Omega-Class Glutathione Transferases: A Snapshot of Enzyme Reduction and Identification of a Non-Catalytic Ligandin Site", PLoS One 8, e60324 (2013) doi: 10.1371/journal.pone.0060324

  43. C. N. Butterfield, A. V. Soldatova, S.-W. Lee, T. G. Spiro and B. M. Tebo, "Mn(II,III) Oxidation and MnO2 Mineralization by an Expressed Bacterial Multicopper Oxidase", Proc. Natl. Acad. Sci. USA 110, 11731 (2013) doi: 10.1073/pnas.1303677110

  44. C. Cabanetos, A. El Labban, J. A. Bartelt, J. D. Douglas, W. R. Mateker, J. M. J. Frechet, M. D. McGeehee and P. M. Beaujuge, "Linear Side Chains in Benzo[1,2-b:4,5-b']dithiophene-Thieno[3,4-c]pyrrole-4,6-dione Polymers Direct Self-Assembly and Solar Cell Performance", J. Am. Chem. Soc. 135, 4656 (2013) doi: 10.1021/ja400365b

  45. S. Caner, N. Nguyen, A. Aguda, R. Zhang, Y. T. Pan, S. G. Withers and G. D. Brayer, "The Structure of the Mycobacterium smegmatis Trehalose Synthase (TreS) Reveals an Unsual Active Site Configuration and Acarbose Binding Mode", Glycobiology 23, 1075 (2013) doi: 10.1093/glycob/cwt044

  46. S. Carrasco-Gil, H. Siebner, D. L. LeDuc, S. M. Webb, R. Millan, J. C. Andrews and L. E. Hernandez, "Mercury Localization and Speciation in Plants Grown Hydroponically or in a Natural Environment", Environ. Sci. Technol. 47, 3082 (2013) doi: 10.1021/es303310t

  47. K. H. Cats, I. D. Gonzalez-Jimenez, Y. Liu, J. Nelson, D. van Campen, F. Meirer, A. M. J. van der Eerden, F. M. F. de Groot, J. C. Andrews and B. M. Weckhuysen, "X-ray Nanoscopy of Cobalt Fischer-Tropsch Catalysts at Work", Chem. Commun. 49, 4622 (2013) doi: 10.1039/C3CC00160A

  48. J. M. Cerrato, M. N. Ashner, D. S. Alessi, J. S. Lezama-Pacheco, R. Bernier-Latmani, J. R. Bargar and D. E. Giammar, "Relative Reactivity of Biogenic and Chemogenic Uraninite and Biogenic Noncrystalline U(IV)", Environ. Sci. Technol. 47, 8557 (2013) doi: 10.1021/es401663t

  49. P. Chandrasekaran, K. P. Chiang, D. Nordlund, U. Bergmann, P. L. Holland and S. DeBeer, "Sensitivity of X-ray Core Spectroscopy to Changes in Metal Ligation: A Systematic Study of Low-Coordinate, High-Spin Ferrous Complexes", Inorg. Chem. 52, 6286 (2013) doi: 10.1021/ic3021723

  50. F.-A. Chao, A. Morelli, J. C. Haugner, III, L. Churchfield, L. N. Hagmann, L. Shi, L. R. Masterson, R. Sarangi, G. Veglia and B. Seeling, "Structure and Dynamics of a Primordil Catalytic Fold Generated by in vitro Evolution", Nat. Chem. Biol. 9, 81 (2013) doi: 10.1038/nchembio.1138

  51. M. Chavarha, R. W. Loney, S. B. Rananavare and S. B. Hall, "An Anionic Phospholipid Enables the Hydrophobic Surfactant Proteins to Alter Spontaneous Curvature", Biophys. J. 104, 594 (2013) doi: 10.1016/j.bpj.2012.12.041

  52. C. Chen, C. Huang, I. Waluyo, D. Nordlund, T.-C. Weng, D. Sokaras, T. Weiss, U. Bergmann, L. G. M. Pettersson and A. Nilsson, "Solvation Structures of Protons and Hydroxide Ions in Water", J. Chem. Phys. 138, 154506 (2013) doi: 10.1063/1.4801512

  53. M. S. Chen, O. P. Lee, J. R. Niskala, A. T. Yiu, C. J. Tassone, K. Schmidt, P. M. Beaujuge, S. S. Onishi, M. F. Toney, A. Zettl and J. M. J. Fréchet, "Enhanced Solid-State Order and Field-Effect Hole Mobility through Control of Nanoscale Polymer Aggregation", J. Am. Chem. Soc. 135, 19229 (2013) doi: 10.1021/ja4088665

  54. M. S. Chen, J. R. Niskala, D. A. Unruh, C. K. Chu, O. P. Lee and J. M. J. Fréchet, "Control of Polymer-Packing Orientation in Thin Films through Synthetic Tailoring of Backbone Coplanarity", Chem. Mater. 25, 4088 (2013) doi: 10.1021/cm402489a

  55. W.-C. Chen, Y.-F. Song, C.-C. Wang, Y. Liu, D. T. Morris, P. A. Pianetta, J. C. Andrews, H.-C. Wu and N.-L. Wu, "Study on the Synthesis-Microstructure-Performance Relationship of Layered Li-Excess Nickel-Manganese Oxide as a Li-ion Battery Cathode Prepared by High-Temperature Calcination", J. Mater. Chem. A 1, 10847 (2013) doi: 10.1039/C3TA11716B

  56. Y. L. Chen, M. Kanou, Z. K. Liu, H. J. Zhang, J. A. Sobota, D. Leuenberger, S. K. Mo, B. Zhou, S.-L. Yang, P. S. Kirchmann, D. H. Lu, R. G. Moore, Z. Hussain, Z. X. Shen, X. L. Qi and T. Sasagawa, "Discovery of a Single Topological Dirac Fermion in the Strong Inversion Asymmetric Compound BiTeCl", Nat. Phys. 9, 704 (2013) doi: 10.1038/nphys2768

  57. J. Cho, H. Y. Kang, L. V. Liu, R. Sarangi, E. I. Solomon and W. Nam, "Mononuclear Nickel(II)-Superoxo and Nickel(III)-Peroxo Complexes Bearing a Common Macrocyclic TMC Ligand", Chem. Sci. 4, 1502 (2013) doi: 10.1039/c3sc2

  58. M. L.-H. Chu, V. E. Ahn, H.-J. Choi, D. L. Daniels, R. Nusse and W. I. Weis, "Structural Studies of Wnts and Identification of an LRP6 Binding Site", Structure 21, 1235 (2013) doi: 10.1016/j.str.2013.05.006

  59. Y. D. Chuang, W. S. Lee, Y. F. Kung, A. P. Sorini, B. Moritz, R. G. Moore, L. Patthey, M. Trigo, D. H. Lu, P. S. Kirchmann, M. Yi, O. Krupin, M. Langner, Y. Zhu, S. Y. Zhou, D. A. Reis, N. Huse, J. S. Robinson, R. A. Kaindl, R. W. Schoenlein, S. L. Johnson, M. Forst, D. Doering, P. Denes, W. F. Schlotter, J. J. Turner, T. Sasagawa, Z. Hussain, Z. X. Shen and T. P. Devereaux, "Real-Time Manifestation of Strongly Coupled Spin and Charge Order Parameters in Stripe-ordered Nicelates via Time-resolved Resonant X-ray Diffraction", Phys. Rev. Lett. 110, 127404 (2013) doi: 10.1103/PhysRevLett.110.127404

  60. Y. Ciribilli, P. Monti, A. Bisio, H. T. Nguyen, A. S. Ethayathulla, A. Ramos, G. Foggetti, P. Menichini, D. Menendez, M. A. Resnick, H. Viadiu, G. Fronza and A. Inga, "Transactivation Specificity is Conserved among p53 Family Proteins and Depends on a Response Element Sequence Code", Nucleic Acids Res. 41, 8637 (2013) doi: 10.1093/nar/gkt657

  61. A. C. Cismasu, C. Levard, F. M. Michel and G. E. Brown, Jr., "Properties of Impurity-Bearing Ferrihydrite II: Insights into the Surface Structure and Composition of Pure, Al- and Si-Bearing Ferrihydrite from Zn(II) Sorption Experiments and Zn K-edge X-ray Absorption Spectroscopy", Geochim. Cosmochim. Acta 119, 46 (2013) doi: 10.1016/j.gca.2013.05.040

  62. A. P.-Z. Clark, C. Shi, B. C. Ng, J. N. Wilking, A. L. Ayzner, A. Z. Stieg, B. J. Schwartz, T. G. Mason, Y. Rubin and S. H. Tolbert, "Self-assembling Semiconducting Polymers-Rods and Gels from Electronic Materials", ACS Nano 7, 962 (2013) doi: 10.1021/nn304437k

  63. D. L. Clark, S. D. Conradson, R. J. Donohoe, P. L. Gordon, D. W. Keogh, P. D. Palmer, B. L. Scott and C. D. Tait, "Chemical Speciation of Neptunium(VI) under Strongly Alkaline Conditions. Structure, Composition, and Oxo Ligand Exchange", Inorg. Chem. 52, 3547 (2013) doi: 10.1021/ic3020139

  64. J. E. Cochran, E. Amir, K. Sivanandan, S.-Y. Ku, J. H. Seo, B. A. Collins, J. R. Tumbleston, M. F. Toney, H. Ade, C. J. Hawker and M. L. Chabinyc, "Synthesis, Solid-State, and Charge-Transport Properties of Conjugated Polythiophene-S,S-dioxides", J. Polym. Sci. B 51, 48 (2013) doi: 10.1002/polb.23167

  65. V. Cody, J. Pace, S. F. Queener, O. O. Adair and A. Gangjee, "Kinetic and Structural Analysis for Potent Antifolate Inhibition of Pneumocystis jirovecii, Pneumocystis carinii and Human Dihydrofolate Reductase (DHFR) and Their Active Site Variants", Antimicrob. Agents Ch. 57, 2669 (2013) doi: 10.1128/?AAC.00172-13

  66. P. Coggill, R. Y. Eberhardt, R. D. Finn, Y. Chang, L. Jaroszewski, A. Godzik, D. Das, Q. Xu, H. L. Axelrod, L. Aravind, A. G. Murzin and A. Bateman, "Two Pfam Protein Families Characterized by a Crystal Structure of Protein lpg2210 from Legionella pneumophila", BMC Bioinformatics 14, 265 (2013) doi: 10.1186/1471-2105-14-265

  67. K. N. Colbert, D. A. Hattendorf, T. M. Weiss, P. Burkhardt, D. Fasshauer and W. I. Weis, "Syntaxin 1a Variants Lacking an N-peptide or Bearing the LE Mutation Bind to Munc18a in a Closed Conformation", Proc. Natl. Acad. Sci. USA 110, 12637 (2013) doi: 10.1073/pnas.1303753110

  68. B. P. Colman, C. L. Arnaout, S. Anciaux, C. K. Gunsch, M. F. Hochella, Jr., B. Kim, G. V. Lowry, B. M. McGill, B. C. Reinsch, C. J. Richardson, J. M. Unrine, J. P. Wright, L. Yin and E. S. Bernhardt, "Low Concentrations of Silver Nanoparticles in Biosolids Cause Adverse Ecosystem Responses under Realistic Field Scenario", PLoS One 8, e57189 (2013) doi: 10.1371/journal.pone.0057189

  69. S. Connelly, J. K. DeMartino, D. L. Boger and I. A. Wilson, "Biological and Structural Evaluation of 10R- and 10S-Methylthio-DDACTHF Reveals a New Role for Sulfur in Inhibition of Glycinamide Ribonucleotide Transformylase", Biochemistry 52, 5133 (2013) doi: 10.1021/bi4005182

  70. S. T. Connor, B. D. Weil, S. Misra, Y. Cui and M. F. Toney, "Behaviors of Fe, Zn, and Ga Substitution in CuInS2 Nanoparticles Probed with Anomalous X-ray Diffraction", Chem. Mater. 25, 320 (2013) doi: 10.1021/cm302794t

  71. S. D. Conradson, T. Durakiewicz, F. J. Espinosa-Faller, Y. Q. An, D. A. Andersson, A. R. Bishop, K. S. Boland, J. A. Bradley, D. D. Byler, D. L. Clark, D. R. Conradson, L. L. Conradson, A. L. Costello, N. J. Hess, G. H. Lander, A. Llobet, M. B. Martucci, J. Mustre de Leon, D. Nordlund, J. S. Lezama-Pacheco, T. E. Proffen, G. Rodriguez, D. E. Schwarz, G. T. Seidler, A. J. Taylor, S. A. Trugman, T. A. Tyson and J. A. Valdez, "Possible Bose-condensate Behavior in a Quantum Phase Originating in a Collective Excitation in the Chemically and Optically Doped Mott-Hubbard System UO2+x", Phys. Rev. B 88, 115135 (2013) doi: 10.1103/PhysRevB.88.115135

  72. R.-M. Couture, D. Wallschläger, J. Rose and Van Cappellen, "Arsenic Binding to Organic and Inorganic Sulfur Species during Microbial Sulfate Reduction: A Sediment Flow-through Reactor Experiment", Environ. Chem. 10, 285 (2013) doi: 10.1071/EN13010

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  510. G. Xue, C. Geng, S. Ye, A. T. Fiedler, F. Neese and L. Que, Jr., "Hydrogen-Bonding Effects on the Reactivity of [X–FeIII–O–FeIV═O] (X = OH, F) Complexes toward C–H Bond Cleavage", Inorg. Chem. 52, 3976 (2013) doi: 10.1021/ic3027896

  511. K. Yamamoto and D. K. Wilson, "Identification, Characterization, and Crystal Structure of an Aldo-Keto Reductase (AKR2E4) from the Silkworm Bombyx mori", Arch. Biochem. Biophys. 538, 156 (2013) doi: 10.1016/j.abb.2013.08.018

  512. Y. Yan, C. Keating, P. Chandrasekaran, U. Jayarathne, J. T. Mague, S. DeBeer, K. M. Lancaster, S. Sproules, I. V. Rubtsov and J. P. Donahue, "Ancillary Ligand Effects upon Dithiolene Redox Noninnocence in Tungsten Bis(dithiolene) Complexes", Inorg. Chem. 52, 6743 (2013) doi: 10.1021/ic4009174

  513. R. Yang, W. Bian, P. Strasser and M. F. Toney, "Dealloyed PdCu3 Thin Film Electrocatalysts for Oxygen Reduction Reaction", J. Power Sources 222, 169 (2013) doi: 10.1016/j.jpowsour.2012.08.064

  514. D. Yardimici, P. Serna and B. C. Gates, "Surface-mediated Synthesis of Dimeric Rhodium Catalysts on MgO: Tracking Changes in the Nuclearity and Ligand Environment of the CatalyticallyActive Sites by X-ray Absorption and Infrared Spectroscopies", Chem.-Eur. J. 19, 1235 (2013) doi: 10.1002/chem.201202514

  515. M. Yi, D. H. Lu, R. Yu, S. C. Riggs, J.-H. Chu, B. Lv, Z. K. Liu, M. Lu, Y.-T. Cui, M. Hashimoto, S.-K. Mo, Z. Hussain, C. W. Chu, I. R. Fisher, Q. Si and Z.-X. Shen, "Observation of Temperature-Induced Crossover to an Orbital-Selective Mott Phase in AxFe2-ySe2 (A = K, Rb) Superconductors", Phys. Rev. Lett. 110, 067003 (2013) doi: 10.1103/PhysRevLett.110.067003

  516. I. Yildirim, H. Park, M. D. Disney and G. C. Schatz, "A Dynamic Structural Model of Expanded RNA CAG Repeats: A Refined X-ray Structure and Computational Investigations Using Molecular Dynamics and Umbrella Sampling Simulations", J. Am. Chem. Soc. 135, 3528 (2013) doi: 10.1021/ja3108627

  517. S. C. Ying, Y. Masue-Slowey, B. D. Kocar, S. D. Griffis, S. Webb, M. A. Marcus, C. A. Francis and S. Fendorf, "Distributed Microbially- and Chemically-mediated Redox Processes Controlling Arsenic Dynamics within Mn-/Fe-oxide Constructed Aggregates", Geochim. Cosmochim. Acta 104, 29 (2013) doi: 10.1016/j.gca.2012.08.020

  518. H. Yoon, Y.-M. Lee, X. Wu, K.-B. Cho, R. Sarangi, W. Nam and S. Fukuzumi, "Enhanced Electron-Transfer Reactivity of Nonheme Manganese(IV)–Oxo Complexes by Binding Scandium Ions", J. Am. Chem. Soc. 135, 9186 (2013) doi: 10.1021/ja403965h

  519. T. H. Yosca, J. Rittle, C. M. Krest, E. L. Onderko, A. Silakov, J. C. Calixto, R. K. Behan and M. T. Green, "Iron(IV)hydroxide pKa and the Role of Thiolate Ligation in C-H Bond Activation by Cytochrome P450", Science 342, 825 (2013) doi: 10.1126/science.1244373

  520. F. Yu, J. E. Penner-Hahn and V. L. Pecoraro, "De Novo-designed Metallopeptides with Type 2 Copper Centers: Modulation of Reduction Potentials and Nitrite Reductase Activities", J. Am. Chem. Soc. 135, 18096 (2013) doi: 10.1021/ja406648n

  521. R. P. Yu, J. M. Darmon, C. Milsmann, G. W. Margulieux, S. C. E. Stieber, S. DeBeer and P. J. Chirik, "Catalytic Hydrogenation Activity and Electronic Structure Determination of Bis(arylimidazol-2-ylidene)pyridine Cobalt Alkyl and Hydride Complexes", J. Am. Chem. Soc. 135, 13168 (2013) doi: 10.1021/ja406608u

  522. A. S. W. Yuen, S. Kolappan, D. Ng and L. Craig, "Structure and Secretion of Cofj, a Putative Colonization Factor of Enterotoxigenic E. coli", Mol. Microbiol. 90, 898 (2013) doi: 10.1111/mmi.12407

  523. J. M. Zachara, P. E. Long, J. Bargar, J. A. Davis, P. Fox, J. K. Fredrickson, M. D. Freshley, A. E. Konopka, C. Liu, J. P. McKinley, M. L. Rockhold, K. H. Williams and S. B. Yabusaki, "Persistence of Uranium Groundwater Plumes: Contrasting Mechanisms at Two DOE Sites in the Groundwater-River Interaction Zone", J. Contam. Hydrol. 147, 45 (2013) doi: 10.1016/j.jconhyd.2013.02.001

  524. F. Zhang, Y. Hu, T. Schuettfort, C.-a. Di, X. Gao, C. R. McNeill, L. Thomsen, S. C. B. Mannsfeld, W. Yuan, H. Sirringhaus and D. Zhu, "Critical Role of Alkyl Chain Branching of Organic Semiconductors in Enabling Solution-Processed N-Channel Organic Thin-Film Transistors with Mobility of up to 3.50 cm2 V-1 s-1", J. Am. Chem. Soc. 135, 2338 (2013) doi: 10.1021/ja311469y

  525. L. Zhang, N. S. Colella, F. Liu, S. Trahan, J. K. Baral, H. H. Winter, S. C. B. Mannsfeld and A. L. Briseno, "Synthesis, Electronic Structure, Molecular Packing/Morphology Evolution, and Carrier Mobilities of Pure Oligo-/Poly(alkylthiophenes)", J. Am. Chem. Soc. 135, 844 (2013) doi: 10.1021/ja3104796

  526. L. Zhang, J. T. Kaiser, G. Meloni, K.-Y. Yang, T. Spatzal, S. L. A. Andrade, O. Einsle, J. B. Howard and D. C. Rees, "The Sixteenth Iron in the Nitrogenase MoFe Protein", Angew. Chem., Int. Ed. Engl. 52, 10529 (2013) doi: 10.1002/ange.201303877

  527. X. Zhang, H. Bronstein, A. J. Kronemeijer, J. Smith, Y. Kim, R. J. Kline, L. J. Richter, T. D. Anthopoulos, H. Sirringhaus, K. Song, M. Heeney, W. Zhang, I. McCulloch and D. M. DeLongchamp, "Molecular Origin of High Field-Effect Mobility in an Indacenodithiophene-Benzothiadiazole Copolymer", Nat. Commun. 4, 2238 (2013) doi: 10.1038/ncomms3238

  528. Y. Zhang, L. Zhou, L. Rouge, A. H. Phillips, C. Lam, P. Liu, W. Sandoval, E. Helgason, J. M. Murray, I. E. Wertz and J. E. Corn, "Conformational Stabilization of Ubiquitin Yields Potent and Selective Inhibitors of USP7", Nat. Chem. Biol. 9, 51 (2013) doi: 10.1038/nchembio.1134

  529. H. Zhao, T. E. Christensen, Y. N. Kamau and L. Tang, "Structures of the Phage Sf6 Large Terminase Provide New Insights into DNA Translocation and Cleavage", Proc. Natl. Acad. Sci. USA 110, 8075 (2013) doi: 10.1073/pnas.1301133110

  530. L. Zhao, M. Levendorf, S. Goncher, T. Schiros, L. Pálova, A. Zabet-Khosousi, K. T. Rim, C. Gutiérrez, D. Nordlund, C. Jaye, M. Hybertsen, D. Reichman, G. W. Flynn, J. Park and A. N. Pasupathy, "Local Atomic and Electronic Structure of Boron Chemical Doping in Monolayer Graphene", Nano Lett. 13, 4659 (2013) doi: 10.1021/nl401781d

  531. L. Zhao, Y. Sun, J. A. Hernandez-Viezcas, A. D. Servin, J. Hong, G. Niu, J. R. Peralta-Videa, M. Duarte-Gardea and J. L. Gardea-Torresdey, "Influence of CeO2 and ZnO Nanoparticles on Cucumber Physiological Markers and Bioaccumulation of Ce and Zn: A Life Cycle Study", J. Agric. Food Chem. 61, 11945 (2013) doi: 10.1021/jf404328e

  532. L. Zhao, W. D. Tolbert, B. Ericksen, C. Zhan, X. Wu, W. Yuan, X. Li, M. Pazgier and W. Lu, "Single, Double and Quadruple Alanine Substitutions at Oligomeric Interfaces Identify Hydrophobicity as the Key Determinant of Human Neutrophil Alpha Defensin HNP1 Function", PLoS One 8, e78937 (2013) doi: 10.1371/journal.pone.0078937

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Books & Conference Proceedings

  1. F. Bridges, T. Keiber, S. Medling and B. C. Sales, "Unusual Distortions about Tl and Pb in PbTe:Tl", in International Conference on Defects in Insulating Materials (ICDIM (2012), Phys. Stat. Sol. C 10, 236 (2013) doi: 10.1002/pssc.201200478

  2. T. Keiber, F. Bridges, R. E. Baumbach and M. B. Maple, "Local Distortions about Nd in NdOs4Sb12", in International Conference on Defects in Insulating Materials (ICDIM (2012), Phys. Stat. Sol. C 10, 250 (2013) doi: 10.1002/pssc.201200506

  3. H. Laksmono, T. A. McQueen, J. A. Sellberg, C. Huang, N. D. Loh, R. G. Sierra, D. Starodub, D. Nordlund, M. Beye, D. P. Deponte, A. Martin, A. Barty, J. Feldkamp, S. Boutet, G. J. Williams, M. J. Bogan and A. Nilsson, "Probing Homogenous Ice Nucleation within Supercooled Bulk Water Droplet in "No Man's Land" with an Ultrafast X-ray Laser", AIP Conf. Proc.1527, 984 (2013)

  4. J. R. I. Lee, M. Bagge-Hansen, T. M. Willey, R. W. Meulenberg, M. H. Nielsen, I. C. Tran and T. van Buuren, "X-ray Absorption Spectroscopy for the Structural Investigation of Self-Assembled-Monolayer-Directed Mineralization", in  J. J. De Yoreo (ed.)., Methods in Enzymology, Elsevier, 532, , (2013), pp. 165-187

  5. Y. Liu, K. H. Cats, J. Nelson Weker, J. C. Andrews, B. M. Weckhuysen and P. Pianetta, "Data-Processing Strategies for Nano-tomography with Elemental Specification", SPIE 8851, 88510A (2013) doi: 10.1117/12.2026436

  6. G. Lucovsky, J. W. Kim and D. Nordlund, "First Demonstration of Device-Quality Symmetric N-MOS and P-MOS Capacitors on P-type and N-type Crystalline Ge Substrates", Microelectron. Eng. 109, 370 (2013) doi: 10.1016/j.mee.2013.03.031

  7. G. Lucovsky, J. Kim, K. Wu, D. Zeller, B. Papas and J. L. Whitten, "Non-Crystalline SiO2: Processing Induced Pre-Existing Defects Associated with Vacated O-Atom Intrinsic Bonding Sites", Phys. Proc. 44, 99 (2013) doi: 10.1016/j.phpro.2013.04.013

  8. G. Lucovsky, G. Parsons, D. Zeller, K. Wu, B. Papas, J. Whitten, R. Lujan and R. A. Street, "Spectroscopic Detection of Medium Range Order in Hydrogenated Amorphous Silicon, a-Si(H): Applications in Photovolatics, Thin Film Transistors and Si-based Microelectronics", Phys. Proc. 44, 91 (2013) doi: 10.1016/j.phpro.2013.04.012

  9. G. Lucovsky, K. Wu, B. Pappas and J. Whitten, "Ligand Field Splittings in Core Level Transitions for Transition Metal (TM) Oxides: Tanabe-Sugano Diagrams and (TM) Dangling Bonds in Vacated O-atom Defects", J. Phys. Conf. Ser. 428, 012022 (2013) doi: 10.1088/1742-6596/428/1/012022

  10. G. Lucovsky, D. Zeller, J. W. Kim and K. Wu, "Process Induced Pre-existing Defects in Non-crystalline SiO2 and GeO2 at Vacated O-atom Bonding Sites and Comparisons with Ge-S(Se) Alloy Bonding Sites", J. Phys. Conf. Ser. 428, 012017 (2013) doi: 10.1088/1742-6596/428/1/012017

  11. J. Nelson, Y. Yang, S. Misra, J. C. Andrews, Y. Cui and M. F. Toney, "Identifying and Managing Radiation Damage during In Situ Transmission X-ray Microscopy of Li-ion Batteries", SPIE 8851, 88510B (2013) doi: 10.1117/12.2027263

  12. J. F. Schmerge, J. Corbett, S. Gierman, R. Hettel, X. Huang, B. Johnson, S. Park, T. Rabedeau, J. Safranek, J. Sebek, K. Tian and Y. Yan, "SSRL Performance Enhancements", J. Phys. Conf. Ser. 425, 042011 (2013) doi: 10.1088/1742-6596/425/4/042011

  13. A. Shavorskiy, A. Cordones, J. Vura-Weis, K. Siefermann, D. Slaughter, F. Sturm, F. Weise, H. Bluhm, M. Strader, H. Cho, M.-F. Lin, C. Bacellar, C. Khurmi, M. Hertlein, J. Guo, T. Tyliszczak, D. Prendergast, G. Coslovich, J. Robinson, R. A. Kaindl, R. W. Schoenlein, A. Belkacem, T. Weber, D. M. Neumark, S. R. Leone, D. Nordlund, H. Ogasawara, A. R. Nilsson, O. Krupin, J. J. Turner, W. F. Schlotter, M. R. Holmes, P. A. Heimann, M. Messerschmidt, M. Minitti, M. Beye, S. Gul, J. Z. Zhang, N. Huse and O. Gessner, "Time-Resolved X-ray Photoelectron Spectroscopy Techniques for Real-Time Studies of Interfacial Charge Transfer Dynamics", AIP Conf. Proc. 1525, 475 (2013)

  14. B. Vega, J. C. Andrews, Y. Liu, J. Gelb and A. Kovscek, "Nanoscale Visualization of Gas Shale Pore and Textural Features", in Proc. Unvconventional Resources Technology Conference, Denver, CO, 12-14 August (2013)

  15. Ph. Wernet, M. Beye, F. de Groot, S. Düsterer, K. Gaffney, S. Grübel, R. Hartsock, F. Hennies, I. Josefsson, B. Kennedy, K. Kunnus, T. Leitner, T. Mazza, M. Meyer, D. Nordlund, M. Odelius, W. Quevedo, P. Radcliffe, I. Rajkovic, B. Schlotter, M. Scholz, S. Schreck, E. Suljoti, S. Techert, J. Turner, C. Weniger, W. Zhang and A. Föhlisch, "Mapping Chemical Bonding of Reaction Intermediates with Femtosecond X-ray Laser Spectroscopy", EPJ Web of Conferences: XVIIIth International Conference on Ultrafast Phenomena 41, 05025 (2013) doi: 10.1051/epjconf/20134105025

  16. L. Zhang, R. Barrett, K. Friedrich, P. Glatzel, T. Mairs, P. Marion, G. Monaco, C. Morawe and T. Weng, "Thermal Distortion Minimization by Geometry Optimization for Water-cooled White Beam Mirror or Multilayer Optics", J. Phys. Conf. Ser. 425, 052029 (2013) doi: 10.1088/1742-6596/425/5/052029
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