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Recent Submissions

  • A maximum pseudo-likelihood approach for phylogenetic networks 

    Yu, Yun; Nakhleh, Luay (2015-10-02)
    Abstract Background Several phylogenomic analyses have recently demonstrated the need to account simultaneously for incomplete lineage sorting (ILS) and hybridization when ...
  • Carbon nanotube fiber terahertz polarizer 

    Zubair, Ahmed; Tsentalovich, Dmitri E.; Young, Colin C.; Heimbeck, Martin S.; Everitt, Henry O.; Pasquali, Matteo; Kono, Junichiro (2016)
    Conventional, commercially available terahertz (THz) polarizers are made of uniformly and precisely spaced metallic wires. They are fragile and expensive, with performance characteristics highly reliant on wire diameters ...
  • Wafer-scale monodomain films of spontaneously aligned single-walled carbon nanotubes 

    He, Xiaowei; Gao, Weilu; Xie, Lijuan; Li, Bo; Zhang, Qi; Lei, Sidong; Robinson, John M.; Hároz, Erik H.; Doorn, Stephen K.; Wang, Weipeng; Vajtai, Robert; Ajayan, Pulickel M.; Adams, W. Wade; Hauge, Robert H.; Kono, Junichiro (2016)
    The one-dimensional character of electrons, phonons and excitons in individual single-walled carbon nanotubes leads to extremely anisotropic electronic, thermal and optical properties. However, despite significant efforts ...
  • Toward carbon nanotube-based imaging agents for the clinic 

    Hernández-Rivera, Mayra; Zaibaq, Nicholas G.; Wilson, Lon J. (2016)
    Among the many applications for carbon nanotubes (CNTs), their use in medicine has drawn special attention due to their potential for a variety of therapeutic and diagnostic applications. As progress toward clinical ...
  • Dicke superradiance in solids [Invited] 

    Cong, Kankan; Zhang, Qi; Wang, Yongrui; Noe, G. Timothy; Belyanin, Alexey; Kono, Junichiro (2016)
    Recent advances in optical studies of condensed matter systems have led to the emergence of a variety of phenomena that have conventionally been studied in the realm of quantum optics. These studies have not only deepened ...
  • FlowCal: A User-Friendly, Open Source Software Tool for Automatically Converting Flow Cytometry Data from Arbitrary to Calibrated Units 

    Castillo-Hair, Sebastian M.; Sexton, John T.; Landry, Brian P.; Olson, Evan J.; Igoshin, Oleg A.; Tabor, Jeffrey J. (2016)
    Flow cytometry is widely used to measure gene expression and other molecular biological processes with single cell resolution via fluorescent probes. Flow cytometers output data in arbitrary units (a.u.) that vary with the ...
  • Mode of Action of Antimicrobial Peptides on E. coli Spheroplasts 

    Sun, Yen; Sun, Tzu-Lin; Huang, Huey W. (2016)
    We investigated the phenomena of antimicrobial peptides (AMPs) directly attacking the cytoplasmic membranes of Escherichia coli spheroplasts. We developed a procedure for fluorescence recovery after photobleaching to examine ...
  • Comparative Study of the Condensing Effects of Ergosterol and Cholesterol 

    Hung, Wei-Chin; Lee, Ming-Tao; Chung, Hsien; Sun, Yi-Ting; Chen, Hsiung; Charron, Nicholas E.; Huang, Huey W. (2016)
    Cholesterol, due to its condensing effect, is considered an important regulator of membrane thickness. Other sterols, due to their structural similarities to cholesterol, are often assumed to have a universal effect on ...
  • Chiral and Achiral Nanodumbbell Dimers: The Effect of Geometry on Plasmonic Properties 

    Smith, Kyle W.; Zhao, Hangqi; Zhang, Hui; Sánchez -Iglesias, Ana; Grzelczak, Marek; Wang, Yumin; Chang, Wei-Shun; Nordlander, Peter; Liz-Marzán, Luis; Link, Stephan (2016)
    Metal nanoparticles with a dumbbell-like geometry have plasmonic properties similar to those of their nanorod counterparts, but the unique steric constraints induced by their enlarged tips result in distinct geometries ...
  • Enhancement of the Electron Spin Resonance of Single-Walled Carbon Nanotubes by Oxygen Removal 

    Rice, William D.; Weber, Ralph T.; Leonard, Ashley D.; Tour, James M.; Nikolaev, Pavel; Arepalli, Sivaram; Berka, Vladimir; Tsai, Ah-Lim; Kono, Junichiro (2012)
    We have observed a nearly 4-fold increase in the electron spin resonance (ESR) signal from an ensemble of single-walled carbon nanotubes (SWCNTs) due to oxygen desorption. By performing temperature-dependent ESR spectroscopy ...
  • Strain-Driven Approach to Quantum Criticality in AFe2As2 with A=K, Rb, and Cs 

    Eilers, Felix; Grube, Kai; Zocco, Diego A.; Wolf, Thomas; Merz, Michael; Schweiss, Peter; Heid, Rolf; Eder, Robert; Yu, Rong; Zhu, Jian-Xin; Si, Qimiao; Shibauchi, Takasada; Löhneysen, Hilbert v. (2016)
    The iron-based superconductors AFe2As2 with A=K, Rb, Cs exhibit large Sommerfeld coefficients approaching those of heavy-fermion systems. We have investigated the magnetostriction and thermal expansion of this series to ...
  • Synthetic-gauge-field stabilization of the chiral-spin-liquid phase 

    Chen, Gang; Hazzard, Kaden R. A.; Rey, Ana Maria; Hermele, Michael (2016)
    We explore the phase diagram of the SU(N) Hubbard models describing fermionic alkaline-earth-metal atoms in a square optical lattice with, on average, one atom per site, using a slave rotor mean-field approach. We find ...
  • Notch-Jagged signalling can give rise to clusters of cells exhibiting a hybrid epithelial/mesenchymal phenotype 

    Boareto, Marcelo; Jolly, Mohit Kumar; Goldman, Aaron; Pietilä, Mika; Mani, Sendurai A.; Sengupta, Shiladitya; Ben-Jacob, Eshel; Levine, Herbert; Onuchic, José N. (2016)
    Metastasis can involve repeated cycles of epithelial-to-mesenchymal transition (EMT) and its reverse mesenchymal-to-epithelial transition. Cells can also undergo partial transitions to attain a hybrid epithelial/mesenchymal ...
  • Ultrathin AAO Membrane as a Generic Template for Sub-100 nm Nanostructure Fabrication 

    Robatjazi, Hossein; Bahauddin, Shah Mohammad; Macfarlan, Luke H.; Fu, Sidan; Thomann, Isabell (2016)
    Anodic aluminum oxide (AAO) templates are emerging as a platform for simple, cost-effective, high-throughput top-down nanofabrication of regular arrays of nanostructures. Thus far, however, AAO pattern transfer has largely ...
  • Quantum mechanical effects in plasmonic structures with subnanometre gaps 

    Zhu, Wenqi; Esteban, Ruben; Borisov, Andrei G.; Baumberg, Jeremy J.; Nordlander, Peter; Lezec, Henri J.; Aizpurua, Javier; Crozier, Kenneth B. (2016)
    Metallic structures with nanogap features have proven highly effective as building blocks for plasmonic systems, as they can provide a wide tuning range of operating frequencies and large near-field enhancements. Recent ...
  • Bayesian Inference of Reticulate Phylogenies under the Multispecies Network Coalescent 

    Wen, Dingqiao; Yu, Yun; Nakhleh, Luay (2016)
    The multispecies coalescent (MSC) is a statistical framework that models how gene genealogies grow within the branches of a species tree. The field of computational phylogenetics has witnessed an explosion in the development ...
  • Protein Frustratometer 2: a tool to localize energetic frustration in protein molecules, now with electrostatics 

    Parra, R. Gonzalo; Schafer, Nicholas P.; Radusky, Leandro G.; Tsai, Min-Yeh; Guzovsky, A. Brenda; Wolynes, Peter G.; Ferreiro, Diego U. (2016)
    The protein frustratometer is an energy landscape theory-inspired algorithm that aims at localizing and quantifying the energetic frustration present in protein molecules. Frustration is a useful concept for analyzing ...
  • Stable isotope and calcareous nannofossil assemblage record of the late Paleocene and early Eocene (Cicogna section) 

    Agnini, Claudia; Spofforth, David J.A.; Dickens, Gerald R.; Rio, Domenico; Pälike, Heiko; Backman, Jan; Muttoni, Giovanni; Dallanave, Edoardo (2016)
    We present records of stable carbon and oxygen isotopes, CaCO3 content, and changes in calcareous nannofossil assemblages across an 81 m thick section of upper Paleocene–lower Eocene marine sedimentary rocks now exposed ...
  • Broadband Absorption Engineering to Enhance Light Absorption in Monolayer MoS2 

    Bahauddin, Shah Mohammad; Robatjazi, Hossein; Thomann, Isabell (2016)
    Here we take a first step toward tackling the challenge of incomplete optical absorption in monolayers of transition metal dichalcogenides for conversion of photon energy, including solar, into other forms of energy. We ...
  • Intensive Atomization Energy: Re-Thinking a Metric for Electronic Structure Theory Methods 

    Perdew, John P.; Sun, Jianwei; Garza, Alejandro J.; Scuseria, Gustavo E. (2016)
    The errors in atomization energies (AE) of molecules have long been used to measure the errors of wavefunction or density functional methods for electronic structure calculations. In particular, the G3 set of Pople and ...

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