• 1,3,5-Triethylbenzene Transformation Reactions Compared to Its Transalkylation Reaction with Ethylbenzene

      Akhtar, M. Naseem; Sulaiman, Al Khattaf (Energy & Fuels, American Chemical Society (ACS), 2009-08-20) [Article]
      The transalkylation of 1,3,5-triethylbenzene (1,3,5-TEB) with ethylbenzene (EB) has been studied over USYtype catalysts using a riser simulator that mimics the operation of a fluidized-bed reactor. The reaction mixture EB and 1,3,5-TEB was used at a molar ratio of 1:1, which is equivalent to 40:60 wt % of EB/1,3,5-TEB, respectively. The reaction temperature was varied from 350 to 500 °C with a time on stream ranging from 3-15 s. The effect of reaction conditions on 1,3,5-TEB conversion, DEB selectivity, and isomerization of 1,3,5-TEB is reported. The transalkylation of 1,3,5-TEB with EB has been compared to the transformation reaction of pure 1,3,5-TEB and EB. The experimental results have revealed that reactivity of 1,3,5-TEB and selectivity of DEB is increased during the transalkylation reaction (EB + 1,3,5-TEB) as compared to the transformation reaction of pure EB or 1,3,5-TEB. The 1,3,5-TEB undergoes isomerization and a cracking reaction to produce DEB and EB but does not undergo any appreciable disproportionation reaction. The isomerization of 1,3,5-TEB is more active at low temperatures, while cracking is more active at high temperatures. © 2009 American Chemical Society.
    • 12.1 Continuum Models of Avascular Tumor Growth

      Byrne, Helen M. (Mathematics and Life Sciences, Walter de Gruyter GmbH, 2016-01) [Book Chapter]
    • 25th Anniversary Article: Colloidal Quantum Dot Materials and Devices: A Quarter-Century of Advances

      Kim, Jin Young; Voznyy, Oleksandr; Zhitomirsky, David; Sargent, Edward H. (Advanced Materials, Wiley-Blackwell, 2013-09) [Article]
      Colloidal quantum dot (CQD) optoelectronics offers a compelling combination of low-cost, large-area solution processing, and spectral tunability through the quantum size effect. Since early reports of size-tunable light emission from solution-synthesized CQDs over 25 years ago, tremendous progress has been made in synthesis and assembly, optical and electrical properties, materials processing, and optoelectronic applications of these materials. Here some of the major developments in this field are reviewed, touching on key milestones as well as future opportunities. Colloidal quantum dots offer a compelling combination of low-cost and large-area solution processing and spectral tunability via the quantum size effect. These materials are promising in a wide range of optoelectronic applications. The quarter-century-long history of the colloidal quantum dot field is reviewed, beginning with early discoveries in synthesis and physical chemistry, through foundational advances in materials processing, chemistry, and understanding, and concluding with an account of recent breakthroughs that have produced record-setting solar cells. © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
    • 25th Anniversary Article: Polymer-Particle Composites: Phase Stability and Applications in Electrochemical Energy Storage

      Srivastava, Samanvaya; Schaefer, Jennifer L.; Yang, Zichao; Tu, Zhengyuan; Archer, Lynden A. (Advanced Materials, Wiley-Blackwell, 2013-12-09) [Article]
      Polymer-particle composites are used in virtually every field of technology. When the particles approach nanometer dimensions, large interfacial regions are created. In favorable situations, the spatial distribution of these interfaces can be controlled to create new hybrid materials with physical and transport properties inaccessible in their constituents or poorly prepared mixtures. This review surveys progress in the last decade in understanding phase behavior, structure, and properties of nanoparticle-polymer composites. The review takes a decidedly polymers perspective and explores how physical and chemical approaches may be employed to create hybrids with controlled distribution of particles. Applications are studied in two contexts of contemporary interest: battery electrolytes and electrodes. In the former, the role of dispersed and aggregated particles on ion-transport is considered. In the latter, the polymer is employed in such small quantities that it has been historically given titles such as binder and carbon precursor that underscore its perceived secondary role. Considering the myriad functions the binder plays in an electrode, it is surprising that highly filled composites have not received more attention. Opportunities in this and related areas are highlighted where recent advances in synthesis and polymer science are inspiring new approaches, and where newcomers to the field could make important contributions. Polymer-particle composites are used in virtually every field of technology. When the particles approach nanometer dimensions, large interfacial regions are created that can be exploited for applications. The fundamental approaches and bottom-up synthesis strategies for understanding and controlling nanoparticle dispersion in polymers are reviewed. Applications of these approaches for creating polymer-particle composite electrolytes and electrodes for energy storage are also considered. © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
    • 2D and 3D reconstructions in acousto-electric tomography

      Kuchment, Peter; Kunyansky, Leonid (Inverse Problems, IOP Publishing, 2011-04-18) [Article]
      We propose and test stable algorithms for the reconstruction of the internal conductivity of a biological object using acousto-electric measurements. Namely, the conventional impedance tomography scheme is supplemented by scanning the object with acoustic waves that slightly perturb the conductivity and cause the change in the electric potential measured on the boundary of the object. These perturbations of the potential are then used as the data for the reconstruction of the conductivity. The present method does not rely on 'perfectly focused' acoustic beams. Instead, more realistic propagating spherical fronts are utilized, and then the measurements that would correspond to perfect focusing are synthesized. In other words, we use synthetic focusing. Numerical experiments with simulated data show that our techniques produce high-quality images, both in 2D and 3D, and that they remain accurate in the presence of high-level noise in the data. Local uniqueness and stability for the problem also hold. © 2011 IOP Publishing Ltd.
    • 2D Gel-Based Multiplexed Proteomic Analysis during Larval Development and Metamorphosis of the Biofouling Polychaete Tubeworm Hydroides elegans

      Zhang, Yu; Sun, Jin; Xiao, Kang; Arellano, Shawn M.; Thiyagarajan, Vengatesen; Qian, Pei Yuan (Journal of Proteome Research, American Chemical Society (ACS), 2010-09-03) [Article]
      Larval settlement and metamorphosis of a common biofouling polychaete worm, Hydroides elegans, involve remarkable structural and physiological changes during this pelagic to sessile habitat shift. The endogenous protein molecules and post-translational modifications that drive this larval transition process are not only of interest to ecologists but also to the antifouling paint industry, which aims to control the settlement of this biofouling species on man-made structures (e.g., ship hulls). On the basis of our recent proteomic studies, we hypothesize that rapid larval settlement of H. elegans could be mediated through changes in phosphorylation status of proteins rather than extensive de novo synthesis of proteins. To test this hypothesis, 2D gel-based multiplexed proteomics technology was used to monitor the changes in protein expression and phosphorylation status during larval development and metamorphosis of H. elegans. The protein expression profiles of larvae before and after they reached competency to attach and metamorphose were similar in terms of major proteins, but the percentage of phosphorylated proteins increased from 41% to 49% after competency. Notably, both the protein and phosphoprotein profiles of the metamorphosed individuals (adult) were distinctly different from that of the larvae, with only 40% of the proteins phosphorylated in the adult stage. The intensity ratio of all phosphoprotein spots to all total protein spots was also the highest in the competent larval stage. Overall, our results indicated that the level of protein phosphorylation might play a crucial role in the initiation of larval settlement and metamorphosis. © 2010 American Chemical Society.
    • 2D metal carbides and nitrides (MXenes) for energy storage

      Anasori, Babak; Lukatskaya, Maria R.; Gogotsi, Yury (Nature Reviews Materials, Springer Nature, 2017-01-17) [Article]
      The family of 2D transition metal carbides, carbonitrides and nitrides (collectively referred to as MXenes) has expanded rapidly since the discovery of Ti3C2 in 2011. The materials reported so far always have surface terminations, such as hydroxyl, oxygen or fluorine, which impart hydrophilicity to their surfaces. About 20 different MXenes have been synthesized, and the structures and properties of dozens more have been theoretically predicted. The availability of solid solutions, the control of surface terminations and a recent discovery of multi-transition-metal layered MXenes offer the potential for synthesis of many new structures. The versatile chemistry of MXenes allows the tuning of properties for applications including energy storage, electromagnetic interference shielding, reinforcement for composites, water purification, gas- and biosensors, lubrication, and photo-, electro- and chemical catalysis. Attractive electronic, optical, plasmonic and thermoelectric properties have also been shown. In this Review, we present the synthesis, structure and properties of MXenes, as well as their energy storage and related applications, and an outlook for future research.
    • 2D Vector Field Simplification Based on Robustness

      Skraba, Primoz; Wang, Bei; Chen, Guoning; Rosen, Paul (2014 IEEE Pacific Visualization Symposium, Institute of Electrical and Electronics Engineers (IEEE), 2014-03) [Conference Paper]
      Vector field simplification aims to reduce the complexity of the flow by removing features in order of their relevance and importance, to reveal prominent behavior and obtain a compact representation for interpretation. Most existing simplification techniques based on the topological skeleton successively remove pairs of critical points connected by separatrices, using distance or area-based relevance measures. These methods rely on the stable extraction of the topological skeleton, which can be difficult due to instability in numerical integration, especially when processing highly rotational flows. These geometric metrics do not consider the flow magnitude, an important physical property of the flow. In this paper, we propose a novel simplification scheme derived from the recently introduced topological notion of robustness, which provides a complementary view on flow structure compared to the traditional topological-skeleton-based approaches. Robustness enables the pruning of sets of critical points according to a quantitative measure of their stability, that is, the minimum amount of vector field perturbation required to remove them. This leads to a hierarchical simplification scheme that encodes flow magnitude in its perturbation metric. Our novel simplification algorithm is based on degree theory, has fewer boundary restrictions, and so can handle more general cases. Finally, we provide an implementation under the piecewise-linear setting and apply it to both synthetic and real-world datasets. © 2014 IEEE.
    • 3,4-Disubstituted Polyalkylthiophenes for High-Performance Thin-Film Transistors and Photovoltaics

      Ko, Sangwon; Verploegen, Eric; Hong, Sanghyun; Mondal, Rajib; Hoke, Eric T.; Toney, Michael F.; McGehee, Michael D.; Bao, Zhenan (Journal of the American Chemical Society, American Chemical Society (ACS), 2011-10-26) [Article]
      We demonstrate that poly(3,4-dialkylterthiophenes) (P34ATs) have comparable transistor mobilities (0.17 cm2 V-1 s-1) and greater environmental stability (less degradation of on/off ratio) than regioregular poly(3-alkylthiophenes) (P3ATs). Unlike poly(3-hexylthiophene) (P3HT), P34ATs do not show a strong and distinct π-π stacking in X-ray diffraction. This suggests that a strong π-π stacking is not always necessary for high charge-carrier mobility and that other potential polymer packing motifs in addition to the edge-on structure (π-π stacking direction parallel to the substrate) can lead to a high carrier mobility. The high charge-carrier mobilities of the hexyl and octyl-substituted P34AT produce power conversion efficiencies of 4.2% in polymer:fullerene bulk heterojunction photovoltaic devices. An enhanced open-circuit voltage (0.716-0.771 eV) in P34AT solar cells relative to P3HT due to increased ionization potentials was observed. © 2011 American Chemical Society.
    • 3D elastic wave modeling using modified high‐order time stepping schemes with improved stability conditions

      Chu, Chunlei; Stoffa, Paul L.; Seif, Roustam (SEG Technical Program Expanded Abstracts 2009, Society of Exploration Geophysicists, 2009-01) [Conference Paper]
      We present two Lax‐Wendroff type high‐order time stepping schemes and apply them to solving the 3D elastic wave equation. The proposed schemes have the same format as the Taylor series expansion based schemes, only with modified temporal extrapolation coefficients. We demonstrate by both theoretical analysis and numerical examples that the modified schemes significantly improve the stability conditions.
    • 3D imaging of optically cleared tissue using a simplified CLARITY method and on-chip microscopy

      Zhang, Yibo; Shin, Yoonjung; Sung, Kevin; Yang, Sam; Chen, Harrison; Wang, Hongda; Teng, Da; Rivenson, Yair; Kulkarni, Rajan P.; Ozcan, Aydogan (Science Advances, American Association for the Advancement of Science (AAAS), 2017-08-12) [Article]
      High-throughput sectioning and optical imaging of tissue samples using traditional immunohistochemical techniques can be costly and inaccessible in resource-limited areas. We demonstrate three-dimensional (3D) imaging and phenotyping in optically transparent tissue using lens-free holographic on-chip microscopy as a low-cost, simple, and high-throughput alternative to conventional approaches. The tissue sample is passively cleared using a simplified CLARITY method and stained using 3,3′-diaminobenzidine to target cells of interest, enabling bright-field optical imaging and 3D sectioning of thick samples. The lens-free computational microscope uses pixel super-resolution and multi-height phase recovery algorithms to digitally refocus throughout the cleared tissue and obtain a 3D stack of complex-valued images of the sample, containing both phase and amplitude information. We optimized the tissue-clearing and imaging system by finding the optimal illumination wavelength, tissue thickness, sample preparation parameters, and the number of heights of the lens-free image acquisition and implemented a sparsity-based denoising algorithm to maximize the imaging volume and minimize the amount of the acquired data while also preserving the contrast-to-noise ratio of the reconstructed images. As a proof of concept, we achieved 3D imaging of neurons in a 200-μm-thick cleared mouse brain tissue over a wide field of view of 20.5 mm2. The lens-free microscope also achieved more than an order-of-magnitude reduction in raw data compared to a conventional scanning optical microscope imaging the same sample volume. Being low cost, simple, high-throughput, and data-efficient, we believe that this CLARITY-enabled computational tissue imaging technique could find numerous applications in biomedical diagnosis and research in low-resource settings.
    • 3D micro-structures by piezoelectric inkjet printing of gold nanofluids

      Kullmann, Carmen; Schirmer, Niklas C; Lee, Ming-Tsang; Ko, Seung Hwan; Hotz, Nico; Grigoropoulos, Costas P; Poulikakos, Dimos (Journal of Micromechanics and Microengineering, IOP Publishing, 2012-04-18) [Article]
      3D solid and pocketed micro-wires and micro-walls are needed for emerging applications that require fine-scale functional structures in three dimensions, including micro-heaters, micro-reactors and solar cells. To fulfill this demand, 3D micro-structures with high aspect ratios (>50:1) are developed on a low-cost basis that is applicable for mass production with high throughput, also enabling the printing of structures that cannot be manufactured by conventional techniques. Additively patterned 3D gold micro-walls and -wires are grown by piezoelectric inkjet printing of nanofluids, selectively combined with in situ simultaneous laser annealing that can be applied to large-scale bulk production. It is demonstrated how the results of 3D printing depend on the piezoelectric voltage pulse, the substrate heating temperature and the structure height, resulting in the identification of thermal regions of optimal printing for best printing results. Furthermore a parametric analysis of the applied substrate temperature during printing leads to proposed temperature ranges for solid and pocketed micro-wire and micro-wall growth for selected frequency and voltages. © 2012 IOP Publishing Ltd.
    • 3D Multiscale Modelling of Angiogenesis and Vascular Tumour Growth

      Perfahl, H.; Byrne, H. M.; Chen, T.; Estrella, V.; Alarcón, T.; Lapin, A.; Gatenby, R. A.; Gillies, R. J.; Lloyd, M. C.; Maini, P. K.; Reuss, M.; Owen, M. R. (Micro and Nano Flow Systems for Bioanalysis, Springer Science + Business Media, 2012-11-01) [Book Chapter]
      We present a three-dimensional, multiscale model of vascular tumour growth, which couples nutrient/growth factor transport, blood flow, angiogenesis, vascular remodelling, movement of and interactions between normal and tumour cells, and nutrient-dependent cell cycle dynamics within each cell. We present computational simulations which show how a vascular network may evolve and interact with tumour and healthy cells. We also demonstrate how our model may be combined with experimental data, to predict the spatio-temporal evolution of a vascular tumour.
    • A 3D Optical Metamaterial Made by Self-Assembly

      Vignolini, Silvia; Yufa, Nataliya A.; Cunha, Pedro S.; Guldin, Stefan; Rushkin, Ilia; Stefik, Morgan; Hur, Kahyun; Wiesner, Ulrich; Baumberg, Jeremy J.; Steiner, Ullrich (Advanced Materials, Wiley-Blackwell, 2011-10-24) [Article]
      Optical metamaterials have unusual optical characteristics that arise from their periodic nanostructure. Their manufacture requires the assembly of 3D architectures with structure control on the 10-nm length scale. Such a 3D optical metamaterial, based on the replication of a self-assembled block copolymer into gold, is demonstrated. The resulting gold replica has a feature size that is two orders of magnitude smaller than the wavelength of visible light. Its optical signature reveals an archetypal Pendry wire metamaterial with linear and circular dichroism. Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
    • 3D seismic modeling and reverse‐time migration with the parallel Fourier method using non‐blocking collective communications

      Chu, Chunlei; Stoffa, Paul L.; Seif, Roustam (SEG Technical Program Expanded Abstracts 2009, Society of Exploration Geophysicists, 2009-01) [Conference Paper]
      The major performance bottleneck of the parallel Fourier method on distributed memory systems is the network communication cost. In this study, we investigate the potential of using non‐blocking all‐to‐all communications to solve this problem by overlapping computation and communication. We present the runtime comparison of a 3D seismic modeling problem with the Fourier method using non‐blocking and blocking calls, respectively, on a Linux cluster. The data demonstrate that a performance improvement of up to 40% can be achieved by simply changing blocking all‐to‐all communication calls to non‐blocking ones to introduce the overlapping capability. A 3D reverse‐time migration result is also presented as an extension to the modeling work based on non‐blocking collective communications.
    • 3DRISM-HI-D2MSA: an improved analytic theory to compute solvent structure around hydrophobic solutes with proper treatment of solute–solvent electrostatic interactions

      Cao, Siqin; Zhu, Lizhe; Huang, Xuhui (Molecular Physics, Informa UK Limited, 2017-12-22) [Article]
      The 3D reference interaction site model (3DRISM) is a powerful tool to study the thermodynamic and structural properties of liquids. However, for hydrophobic solutes, the inhomogeneity of the solvent density around them poses a great challenge to the 3DRISM theory. To address this issue, we have previously introduced the hydrophobic-induced density inhomogeneity theory (HI) for purely hydrophobic solutes. To further consider the complex hydrophobic solutes containing partial charges, here we propose the D2MSA closure to incorporate the short-range and long-range interactions with the D2 closure and the mean spherical approximation, respectively. We demonstrate that our new theory can compute the solvent distributions around real hydrophobic solutes in water and complex organic solvents that agree well with the explicit solvent molecular dynamics simulations.
    • 3USS: a web server for detecting alternative 3'UTRs from RNA-seq experiments.

      Le Pera, Loredana; Mazzapioda, Mariagiovanna; Tramontano, Anna (Bioinformatics, Oxford University Press (OUP), 2015-01-22) [Article]
      Protein-coding genes with multiple alternative polyadenylation sites can generate mRNA 3'UTR sequences of different lengths, thereby causing the loss or gain of regulatory elements, which can affect stability, localization and translation efficiency. 3USS is a web-server developed with the aim of giving experimentalists the possibility to automatically identify alternative 3 ': UTRs (shorter or longer with respect to a reference transcriptome), an option that is not available in standard RNA-seq data analysis procedures. The tool reports as putative novel the 3 ': UTRs not annotated in available databases. Furthermore, if data from two related samples are uploaded, common and specific alternative 3 ': UTRs are identified and reported by the server.3USS is freely available at http://www.biocomputing.it/3uss_server.
    • 4 Gbps direct modulation of 450 nm GaN laser for high-speed visible light communication

      Lee, Changmin; Zhang, Chong; Cantore, Michael; Farrell, Robert M.; Oh, Sang Ho; Margalith, Tal; Speck, James S.; Nakamura, Shuji; Bowers, John E.; DenBaars, Steven P. (Optics Express, The Optical Society, 2015-06-10) [Article]
      We demonstrate high-speed data transmission with a commercial high power GaN laser diode at 450 nm. 2.6 GHz bandwidth was achieved at an injection current of 500 mA using a high-speed visible light communication setup. Record high 4 Gbps free-space data transmission rate was achieved at room temperature.
    • 5 kHz thermometry in a swirl-stabilized gas turbine model combustor using chirped probe pulse femtosecond CARS. Part 1: Temporally resolved swirl-flame thermometry

      Dennis, Claresta N.; Slabaugh, Carson D.; Boxx, Isaac G.; Meier, Wolfgang; Lucht, Robert P. (Combustion and Flame, Elsevier BV, 2016-06-20) [Article]
      Single-laser-shot temperature measurements at 5 kHz were performed in a gas turbine model combustor using femtosecond (fs) coherent anti-Stokes Raman scattering (CARS). The combustor was operated at two conditions; one exhibiting a low level of thermoacoustic instability and the other a high level of instability. Measurements were performed at 73 locations within each flame in order to resolve the spatial flame structure and compare to previously published studies. The measurement procedures, including the procedure for calibrating the laser system parameters, are discussed in detail. Despite the high turbulence levels in the combustor, signals were obtained on virtually every laser shot, and these signals were strong enough for spectral fitting analysis for determination of flames temperatures. The spatial resolution of the single-laser shot temperature measurements was approximately 600 µm, the precision was approximately ±2%, and the estimated accuracy was approximately ±3%. The dynamic range was sufficient for temperature measurements ranging from 300 K to 2200 K, although some detector saturation was observed for low temperature spectra. These results demonstrate the usefulness of fs-CARS for the investigation of highly turbulent combustion phenomena. In a companion paper, the time-resolved fs CARS data are analyzed to provide insight into the temporal dynamics of the gas turbine model combustor flow field.
    • 77 GHz MEMS antennas on high-resistivity silicon for linear and circular polarization

      Sallam, M. O.; Soliman, E. A.; Hassan, S.; El Katteb, O.; Sedky, S. (2011 IEEE International Symposium on Antennas and Propagation (APSURSI), Institute of Electrical and Electronics Engineers (IEEE), 2011-07) [Conference Paper]
      Two new MEMS antennas operating at 77 GHz are presented in this paper. The first antenna is linearly polarized. It possesses a vertical silicon wall that carries a dipole on top of it. The wall is located on top of silicon substrate covered with a ground plane. The other side of the substrate carries a microstrip feeding network in the form of U-turn that causes 180 phase shift. This phase-shifter feeds the arms of the dipole antenna via two vertical Through-Silicon Vias (TSVs) that go through the entire wafer. The second antenna is circularly polarized and formed using two linearly polarized antennas spatially rotated with respect to each other by 90 and excited with 90 phase shift. Both antennas are fabricated using novel process flow on a single high-resistivity silicon wafer via bulk micromachining. Only three processing steps are required to fabricate these antennas. The proposed antennas have appealing characteristics, such as high polarization purity, high gain, and high radiation efficiency. © 2011 IEEE.