VisGenome: visualization of single and comparative genome representations

VisGenome visualizes single and comparative representations for the rat, the mouse and the human chromosomes at different levels of detail. The tool offers smooth zooming and panning which is more flexible than seen in other browsers. It presents information available in Ensembl for single chromosomes, as well as homologies (orthologue predictions including ortholog one2one, apparent ortholog one2one, ortholog many2many) for any two chromosomes from different species. The application can query supporting data from Ensembl by invoking a link in a browser

Pose, posture, formation and contortion in kinematic systems

The concepts of pose, posture, formation and contortion are defined for serial, parallel and hybrid kinematic systems. Workspace and jointspace structure is examined in terms of these concepts. The inter-relationships of pose, posture, formation and contortion are explored for a range of robot workspace and jointspace types

Managing professional identity within a changing market environment: New Zealand optometrists’ responses to the growth of corporate optometry

This research investigated the effects of changes in the market environment for optometry services and products on the professional identity of New Zealand optometrists. It explored three issues. First, ways participants’ location within either the independent or corporate sectors shaped their professional identities. Second, ways potential ethical conflicts between participants’ healthcare and retailing identities were resolved. Last, participants’ opinions concerning the future of their profession. Twelve male and fourteen female optometrists were interviewed. Nineteen participants worked within independent optometry practices. Seven worked within practices that were part of international optometry chains. Six participants were recent graduates, the rest experienced optometrists. All participants identified primarily as healthcare professionals. All recognised that practising optometry within a commercial market created the possibility of ethical conflicts between healthcare and business imperatives. There were differences in the ways participants managed this boundary, with participants working within corporate optometry seeming more comfortable with the business aspects of their profession. All participants thought the profession was changing and several suggested that the future of independent optometry was limited. The article concludes that recent changes within the market environment of optometry have heightened tensions between optometrists’ medical and entrepreneurial identities and contributed to changing work patterns within the profession.fals

Remote sensing of atmospheric winds using a coherent, CW lidar and speckle-turbulence interaction

Speckle turbulence interaction has the potential for allowing single ended remote sensing of the path averaged vector crosswind in a plane perpendicular to the line of sight to a target. If a laser transmitter is used to illuminate a target, the resultant speckle field generated by the target is randomly perturbed by the atmospheric turbulence as it propagates back to the location of the transmitter-receiver. When a cross wind is present, this scintillation pattern will move with time across the receiver. A continuous wave (cw) laser transmitter of modest power level in conjunction with optical heterodyne detection was used to exploit the speckel turbulence interaction and measure the crosswind. The use of a cw transmitter at 10.6 microns and optical heterodyne detection has many advantages over direct detection and a double pulsed source in the visible or near infrared. These advantages include the availability of compact, reliable and inexpensive transmitters, better penetration of smoke, dust and fog; stable output power; low beam pointing jitter; and considerably reduced complexity in the receiver electronics

Multilayered folding with voids

In the deformation of layered materials such as geological strata, or stacks of paper, mechanical properties compete with the geometry of layering. Smooth, rounded corners lead to voids between the layers, while close packing of the layers results in geometrically-induced curvature singularities. When voids are penalized by external pressure, the system is forced to trade off these competing effects, leading to sometimes striking periodic patterns. In this paper we construct a simple model of geometrically nonlinear multi-layered structures under axial loading and pressure confinement, with non-interpenetration conditions separating the layers. Energy minimizers are characterized as solutions of a set of fourth-order nonlinear differential equations with contact-force Lagrange multipliers, or equivalently of a fourth-order free-boundary problem. We numerically investigate the solutions of this free boundary problem, and compare them with the periodic solutions observed experimentally

Effects of vertical vibration on hopper flows of granular material

The discharge of granular material from a hopper subject to vertical sinusoidal oscillations was investigated using experiments and discrete element computer simulations. With the hopper exit closed, side-wall convection cells are observed, oriented such that particles move up along the inclined walls of the hopper and down at the center line. The convection cells are a result of the granular bed dilation during free fall and the subsequent interaction with the hopper walls. The mass discharge rate for a vibrating hopper scaled by the discharge rate without vibration reaches a maximum value at a dimensionless velocity amplitude just greater than 1. Further increases in the velocity decrease the discharge rate. The decrease occurs due to a decrease in the bulk density of the discharging material when vibration is applied

How robust is the evidence of an emerging or increasing female excess in physical morbidity between childhood and adolescence? Results of a systematic literature review and meta-analyses

For asthma and psychological morbidity, it is well established that higher prevalence among males in childhood is replaced by higher prevalence among females by adolescence. This review investigates whether there is evidence for a similar emerging female ‘excess’ in relation to a broad range of physical morbidity measures. Establishing whether this pattern is generalised or health outcome-specific will further understandings of the aetiology of gender differences in health. Databases (Medline; Embase; CINAHL; PsycINFO; ERIC) were searched for English language studies (published 1992–2010) presenting physical morbidity prevalence data for males and females, for at least two age-bands within the age-range 4–17 years. A three-stage screening process (initial sifting; detailed inspection; extraction of full papers), was followed by study quality appraisals. Of 11 245 identified studies, 41 met the inclusion criteria. Most (n = 31) presented self-report survey data (five longitudinal, 26 cross-sectional); 10 presented routinely collected data (GP/hospital statistics). Extracted data, supplemented by additional data obtained from authors of the included studies, were used to calculate odds ratios of a female excess, or female:male incident rate ratios as appropriate. To test whether these changed with age, the values were logged and regressed on age in random effects meta-regressions. These showed strongest evidence of an emerging/increasing female excess for self-reported measures of headache, abdominal pain, tiredness, migraine and self-assessed health. Type 1 diabetes and epilepsy, based on routinely collected data, did not show a significant emerging/increasing female excess. For most physical morbidity measures reviewed, the evidence broadly points towards an emerging/increasing female excess during the transition to adolescence, although results varied by morbidity measure and study design, and suggest that this may occur at a younger age than previously thought

Stellar Motion around Spiral Arms: Gaia Mock Data

We compare the stellar motion around a spiral arm created in two different scenarios, transient/co-rotating spiral arms and density-wave-like spiral arms. We generate Gaia mock data from snapshots of the simulations following these two scenarios using our stellar population code, SNAPDRAGONS, which takes into account dust extinction and the expected Gaia errors. We compare the observed rotation velocity around a spiral arm similar in position to the Perseus arm, and find that there is a clear difference in the velocity features around the spiral arm between the co-rotating spiral arm and the density-wave-like spiral arm. Our result demonstrates that the volume and accuracy of the Gaia data are sufficient to clearly distinguish these two scenarios of the spiral arms.Comment: 5 pages, 1 figure, to appear in the proceedings of "The Milky Way Unravelled by Gaia: GREAT Science from the Gaia Data Releases", Barcelona, 1-5 December 2014, eds. N. Walton, F. Figueras, C. Soubira

From gas to galaxies

The unsurpassed sensitivity and resolution of the Square Kilometer Array (SKA) will make it possible for the first time to probe the continuum emission of normal star forming galaxies out to the edges of the universe. This opens the possibility for routinely using the radio continuum emission from galaxies for cosmological research as it offers an independent probe of the evolution of the star formation density in the universe. In addition it offers the possibility to detect the first star forming objects and massive black holes. In deep surveys SKA will be able to detect HI in emission out to redshifts of $z \approx 2.5$ and hence be able to trace the conversion of gas into stars over an era where considerable evolution is taking place. Such surveys will be able to uniquely determine the respective importance of merging and accreting gas flows for galaxy formation over this redshift range (i.e. out to when the universe was only one third its present age). It is obvious that only SKA will able to see literally where and how gas is turned into stars. These and other aspects of SKA imaging of galaxies will be discussed.Comment: To be published in New Astronomy Reviews, Elsevier, Amsterdam as part of "Science with the Square Kilometre Array", eds. C. Carilli and S. Rawlings. 18 pages + 13 figures; high resolution version and other chapters of "Science with the Square Kilometre Array" available at http://www.skatelescope.org/pages/science_gen.ht