Observation of the onset of strong scattering on high frequency acoustic phonons in densified silica glass

The linewidth of longitudinal acoustic waves in densified silica glass is obtained by inelastic x-ray scattering. It increases with a high power alpha of the frequency up to a crossover where the waves experience strong scattering. We find that \alpha is at least 4, and probably larger. Resonance and hybridization of acoustic waves with the boson-peak modes seems to be a more likely explanation for these findings than Rayleigh scattering from disorder.Comment: 4 pages, 4 figures, to appear in Phys. Rev. Letter

Observation of Changes in the Atomic and Electronic Structure of Single-Crystal YBa₂Cu₃O₆.₆ Accompanying Bromination

To ascertain the role of bromination in the recovery of superconductivity in underdoped YBa2Cu3O6+y (YBCO), we have performed polarized multiple-edge x-ray-absorption fine structure (XAFS) measurements on normal (y~0.6) and brominated (Br/Cu~1/30, y~0.6) single crystals with superconducting transitions at 63 and 89 K, respectively. The brominated sample becomes strongly heterogeneous on an atomic length scale. Approximately one-third of YBCO is locally decomposed yet incorporated as a well-ordered host lattice as nanoscale regions. The decomposed phase consists of heavily distorted domains with an order not following that of the host lattice. Structurally, these domains are fragments of the YBCO lattice that are discontinued along the Cu(1)-O(1) containing planes. The local structure is consistent with the cluster expansions: Y-O(2,3)8-Cu(2)8-..., Ba-O8-Cu(2)4Cu(1)2-..., and Cu-O4... about the Y, Ba, and Cu sites. Interatomic distances and Debye-Waller factors for the expansions were determined from fits to Y K-, Ba L3-, and Cu K-edge XAFS data at room temperature. Br K-edge data reveal that Br does not enter substitutionally or interstitially into the perfect YBCO lattice. However, Br does occupy the Cu(1) sites in a nanofragment of the YBCO lattice, forming Br-O(4)-Ba-Cu2(1)Cu(2)-... nanoclusters. From polarized measurements these nanoclusters were found to be almost randomly oriented with respect to the host crystal, and probably are the nucleus of the decomposed phase. This heterogeneity brings about the unusual structural and electronic properties of the normal state previously reported in the literature. Implications on for diffraction, transport, and magnetization measurements are discussed

Anharmonic vs. relaxational sound damping in glasses: I. Brillouin scattering from densified silica

This series discusses the origin of sound damping and dispersion in glasses. In particular, we address the relative importance of anharmonicity versus thermally activated relaxation. In this first article, Brillouin-scattering measurements of permanently densified silica glass are presented. It is found that in this case the results are compatible with a model in which damping and dispersion are only produced by the anharmonic coupling of the sound waves with thermally excited modes. The thermal relaxation time and the unrelaxed velocity are estimated.Comment: 9 pages with 7 figures, added reference

Additive Manufacturing of Optically Transparent Glass

We present a fully functional material extrusion printer for optically transparent glass. The printer is composed of scalable modular elements able to operate at the high temperatures required to process glass from a molten state to an annealed product. We demonstrate a process enabling the construction of 3D parts as described by computer-aided design models. Processing parameters such as temperature, which control glass viscosity, and flow rate, layer height, and feed rate can thus be adjusted to tailor printing to the desired component, its shape, and its properties. We explored, defined, and hard-coded geometric constraints and coiling patterns as well as the integration of various colors into the current controllable process, contributing to a new design and manufacturing space. We report on performed characterization of the printed materials executed to determine their morphological, mechanical, and optical properties. Printed parts demonstrated strong adhesion between layers and satisfying optical clarity. This molten glass 3D printer demonstrates the production of parts that are highly repeatable, enable light transmission, and resemble the visual and mechanical performance of glass constructs that are conventionally obtained. Utilizing the optical nature of glass, complex caustic patterns were created by projecting light through the printed objects. The 3D-printed glass objects described here can thus be extended to implementations across scales and functional domains including product and architectural design. This research lies at the intersection of design, engineering, science, and art, representing a highly interdisciplinary approach.Massachusetts Institute of Technology. Department of Mechanical EngineeringGlass Art Society (Technology Advancing Glass Grant

The crossover from propagating to strongly scattered acoustic modes of glasses observed in densified silica

Spectroscopic results on low frequency excitations of densified silica are presented and related to characteristic thermal properties of glasses. The end of the longitudinal acoustic branch is marked by a rapid increase of the Brillouin linewidth with the scattering vector. This rapid growth saturates at a crossover frequency Omega_co which nearly coincides with the center of the boson peak. The latter is clearly due to additional optic-like excitations related to nearly rigid SiO_4 librations as indicated by hyper-Raman scattering. Whether the onset of strong scattering is best described by hybridization of acoustic modes with these librations, by their elastic scattering (Rayleigh scattering) on the local excitations, or by soft potentials remains to be settled.Comment: 14 pages, 6 figures, to be published in a special issue of J. Phys. Condens. Matte

Physical Origin of the Boson Peak Deduced from a Two-Order-Parameter Model of Liquid

We propose that the boson peak originates from the (quasi-) localized vibrational modes associated with long-lived locally favored structures, which are intrinsic to a liquid state and are randomly distributed in a sea of normal-liquid structures. This tells us that the number density of locally favored structures is an important physical factor determining the intensity of the boson peak. In our two-order-parameter model of the liquid-glass transition, the locally favored structures act as impurities disturbing crystallization and thus lead to vitrification. This naturally explains the dependence of the intensity of the boson peak on temperature, pressure, and fragility, and also the close correlation between the boson peak and the first sharp diffraction peak (or prepeak).Comment: 5 pages, 1 figure, An error in the reference (Ref. 7) was correcte

Anharmonicity, vibrational instability and Boson peak in glasses

We show that a {\em vibrational instability} of the spectrum of weakly interacting quasi-local harmonic modes creates the maximum in the inelastic scattering intensity in glasses, the Boson peak. The instability, limited by anharmonicity, causes a complete reconstruction of the vibrational density of states (DOS) below some frequency $\omega_c$, proportional to the strength of interaction. The DOS of the new {\em harmonic modes} is independent of the actual value of the anharmonicity. It is a universal function of frequency depending on a single parameter -- the Boson peak frequency, $\omega_b$ which is a function of interaction strength. The excess of the DOS over the Debye value is $\propto\omega^4$ at low frequencies and linear in $\omega$ in the interval $\omega_b \ll \omega \ll \omega_c$. Our results are in an excellent agreement with recent experimental studies.Comment: LaTeX, 8 pages, 6 figure

Inhibition of activin/nodal signalling is necessary for pancreatic differentiation of human pluripotent stem cells

Peer reviewedPublisher PD

CMS: A web-based system for visualization and analysis of genome-wide methylation data of human cancers

DNA methylation of promoter CpG islands is associated with gene suppression, and its unique genome-wide profiles have been linked to tumor progression. Coupled with high-throughput sequencing technologies, it can now efficiently determine genome-wide methylation profiles in cancer cells. Also, experimental and computational technologies make it possible to find the functional relationship between cancer-specific methylation patterns and their clinicopathological parameters.Cancer methylome system (CMS) is a web-based database application designed for the visualization, comparison and statistical analysis of human cancer-specific DNA methylation. Methylation intensities were obtained from MBDCap-sequencing, pre-processed and stored in the database. 191 patient samples (169 tumor and 22 normal specimen) and 41 breast cancer cell-lines are deposited in the database, comprising about 6.6 billion uniquely mapped sequence reads. This provides comprehensive and genome-wide epigenetic portraits of human breast cancer and endometrial cancer to date. Two views are proposed for users to better understand methylation structure at the genomic level or systemic methylation alteration at the gene level. In addition, a variety of annotation tracks are provided to cover genomic information. CMS includes important analytic functions for interpretation of methylation data, such as the detection of differentially methylated regions, statistical calculation of global methylation intensities, multiple gene sets of biologically significant categories, interactivity with UCSC via custom-track data. We also present examples of discoveries utilizing the framework.CMS provides visualization and analytic functions for cancer methylome datasets. A comprehensive collection of datasets, a variety of embedded analytic functions and extensive applications with biological and translational significance make this system powerful and unique in cancer methylation research. CMS is freely accessible at: http://cbbiweb.uthscsa.edu/KMethylomes/