A wetting and drying scheme for ROMS

This paper is not subject to U.S. copyright. The definitive version was published in Computers & Geosciences 58 (2013): 54-61, doi:10.1016/j.cageo.2013.05.004.The processes of wetting and drying have many important physical and biological impacts on shallow water systems. Inundation and dewatering effects on coastal mud flats and beaches occur on various time scales ranging from storm surge, periodic rise and fall of the tide, to infragravity wave motions. To correctly simulate these physical processes with a numerical model requires the capability of the computational cells to become inundated and dewatered. In this paper, we describe a method for wetting and drying based on an approach consistent with a cell-face blocking algorithm. The method allows water to always flow into any cell, but prevents outflow from a cell when the total depth in that cell is less than a user defined critical value. We describe the method, the implementation into the three-dimensional Regional Oceanographic Modeling System (ROMS), and exhibit the new capability under three scenarios: an analytical expression for shallow water flows, a dam break test case, and a realistic application to part of a wetland area along the Georgia Coast, USA.We acknowledge support for studies demonstrated in this manuscript that were supported by the National Science Foundation,Division of Industrial Innovation and Partnerships (IIP)under the 3470Z. Defne etal./ Renewable Energy 36(2011)3461e3471 Partnerships for Innovation Program Grant IIP-0332613,and from the Strategic Energy Institute at Georgia Institute of Technology via a Creating Energy Options grant and the 104B Georgia Water Resources Institute Funding Program,and also by the Department of Energy,Wind and Hydropower Technologies Program award number DE-FG36-08GO18174 and by the state of Georgia

Reirradiation practices for children with diffuse intrinsic pontine glioma

Background: Diffuse intrinsic pontine gliomas (DIPGs) are a leading cause of brain tumor deaths in children. Current standard of care includes focal radiation therapy (RT). Despite clinical improvement in most patients, the effect is temporary and median survival is less than 1 year. The use and benefit of reirradiation have been reported in progressive DIPG, yet standardized approaches are lacking. We conducted a survey to assess reirradiation practices for DIPG in North America. Methods: A 14-question REDCap survey was disseminated to 396 North American physicians who care for children with CNS tumors. Results: The response rate was 35%. Participants included radiation-oncologists (63%; 85/135) and pediatric oncologists/neuro-oncologists (37%; 50/135). Most physicians (62%) treated 1 to 5 DIPG patients per year, with 10% treating more than 10 patients per year. Reirradiation was considered a treatment option by 88% of respondents. Progressive disease and worsening clinical status were the most common reasons to consider reirradiation. The majority (84%) surveyed considered reirradiation a minimum of 6 months following initial RT. Doses varied, with median total dose of 2400 cGy (range, 1200-6000 cGy) and fraction size of 200 cGy (range, 100-900 cGy). Concurrent use of systemic agents with reirradiation was considered in 46%, including targeted agents (37%), biologics (36%), or immunotherapy (25%). One-time reirradiation was the most common practice (71%). Conclusion: Although the vast majority of physicians consider reirradiation as a treatment for DIPG, total doses and fractionation varied. Further clinical trials are needed to determine the optimal radiation dose and fractionation for reirradiation in children with progressive DIPG

The Grizzly, November 8, 2018

UC\u27s First African-American Graduate Passes Away: W. Robert Crigler Graduated from Ursinus in 1956 • This is Their Home and They Belong Here : Ursinus Released a Statement Affirming the Rights of Trans Students in the Wake of Threats from President Trump • What\u27s Happening in Honduras? • Ursinus Introduces Vice President of Enrollment, Shannon Zottola • The Reader\u27s Recovery • The Cubed Curve • Opinions: Latin America Deserves Better Response from the U.S.; Ritter Should be the Next Update to Campus • Athlete Spotlight: Gabriela Howell • Men\u27s Basketball Participates in The Programhttps://digitalcommons.ursinus.edu/grizzlynews/1607/thumbnail.jp

The Grizzly, November 29, 2018

Ursinus Alum Receives Prestigious Fellowship • Student Discusses Journey with Brain Surgery • Members of Ursinus Community Gathered for 3rd Annual Celebration of Lights • Ursinus and the Armed Forces • Farm Fellowship and the Ursinus Campus Farm • Opinions: Venom: On Capes, Camp, and the Case for Cheese; Abolishing ICE Isn\u27t Radical, it\u27s Obvious • Wrestling Senior Reflects on Lessons Learned from Coach Racich • Football Caps Season with Four Straight Wins, Takes Centennial / MAC Bowl Titlehttps://digitalcommons.ursinus.edu/grizzlynews/1609/thumbnail.jp

Gravitational waveforms for neutron star binaries from binary black hole simulations

Gravitational waves from binary neutron star (BNS) and black-hole/neutron star (BHNS) inspirals are primary sources for detection by the Advanced Laser Interferometer Gravitational-Wave Observatory. The tidal forces acting on the neutron stars induce changes in the phase evolution of the gravitational waveform, and these changes can be used to constrain the nuclear equation of state. Current methods of generating BNS and BHNS waveforms rely on either computationally challenging full 3D hydrodynamical simulations or approximate analytic solutions. We introduce a new method for computing inspiral waveforms for BNS/BHNS systems by adding the post-Newtonian (PN) tidal effects to full numerical simulations of binary black holes (BBHs), effectively replacing the non-tidal terms in the PN expansion with BBH results. Comparing a waveform generated with this method against a full hydrodynamical simulation of a BNS inspiral yields a phase difference of < 1 radian over ~ 15 orbits. The numerical phase accuracy required of BNS simulations to measure the accuracy of the method we present here is estimated as a function of the tidal deformability parameter ⋋

Clinical outcomes of radiation therapy for transgender and gender-expansive people with cancer

IntroductionApproximately 1.6 million people in the US identify as transgender, many of whom undergo gender-affirming medical or surgical therapies. While transgender individuals are diagnosed with cancer at similar rates as those who are cisgender, the impacts of radiation therapy on outcomes of gender-affirming care in transgender, nonbinary, and gender-expansive people with cancer are understudied. We report on the experiences and outcomes of transgender and gender-expansive patients receiving radiation therapy for cancer treatment.MethodsThis study is a multi-institutional retrospective review of patients evaluated from 2005-2019 identified as transgender or gender-expansive in the medical record and treated with radiation therapy.ResultsWe identified 23 patients who received radiation to 32 sites, including 12 (38%) to the brain, head, or neck, 8 (25%) to the thorax, and 7 (22%) to the pelvis. Seventeen patients (74%) received gender-affirming hormone therapy and 13 patients (57%) underwent gender-affirming surgery. Four patients had pelvic radiation before or after gender-affirming pelvic surgery, including two trans women who had pelvic radiation after vaginoplasty. Four patients had radiation to the chest or thorax and gender-affirming chest or breast surgery, including two trans men with breast cancer. Two pediatric patients developed hypopituitarism and hypogonadism secondary to radiation therapy and, as adults, changed their hormone replacement therapy to affirm their transgender identities.DiscussionTransgender people with cancer undergo radiation therapy for a wide range of cancers. Understanding their prior gender-affirming medical or surgical treatments and future gender affirmation goals may identify important considerations for their oncologic care

Genomic prediction of dry matter intake in dairy cattle from an international data set consisting of research herds in Europe, North America, and Australasia

peer-reviewedFinancial support for gDMI from CRV (Arnhem, the Netherlands), ICBF (Cork, Ireland), CONAFE (Madrid, Spain), DairyCo (Warwickshire, UK) directly to the gDMI consortium, and The Natural Science and Engineering Research Council of Canada and DairyGen Council of Canadian Dairy Network (Guelph, ON, Canada) is gratefully appreciated, as well as the EU FP7 IRSES SEQSEL (Grant no. 317697).With the aim of increasing the accuracy of genomic estimated breeding values for dry matter intake (DMI) in Holstein-Friesian dairy cattle, data from 10 research herds in Europe, North America, and Australasia were combined. The DMI records were available on 10,701 parity 1 to 5 records from 6,953 cows, as well as on 1,784 growing heifers. Predicted DMI at 70 d in milk was used as the phenotype for the lactating animals, and the average DMI measured during a 60- to 70-d test period at approximately 200 d of age was used as the phenotype for the growing heifers. After editing, there were 583,375 genetic markers obtained from either actual high-density single nucleotide polymorphism (SNP) genotypes or imputed from 54,001 marker SNP genotypes. Genetic correlations between the populations were estimated using genomic REML. The accuracy of genomic prediction was evaluated for the following scenarios: (1) within-country only, by fixing the correlations among populations to zero, (2) using near-unity correlations among populations and assuming the same trait in each population, and (3) a sharing data scenario using estimated genetic correlations among populations. For these 3 scenarios, the data set was divided into 10 sub-populations stratified by progeny group of sires; 9 of these sub-populations were used (in turn) for the genomic prediction and the tenth was used for calculation of the accuracy (correlation adjusted for heritability). A fourth scenario to quantify the benefit for countries that do not record DMI was investigated (i.e., having an entire country as the validation population and excluding this country in the development of the genomic predictions). The optimal scenario, which was sharing data, resulted in a mean prediction accuracy of 0.44, ranging from 0.37 (Denmark) to 0.54 (the Netherlands). Assuming near-unity among-country genetic correlations, the mean accuracy of prediction dropped to 0.40, and the mean within-country accuracy was 0.30. If no records were available in a country, the accuracy based on the other populations ranged from 0.23 to 0.53 for the milking cows, but were only 0.03 and 0.19 for Australian and New Zealand heifers, respectively; the overall mean prediction accuracy was 0.37. Therefore, there is a benefit in collaboration, because phenotypic information for DMI from other countries can be used to augment the accuracy of genomic evaluations of individual countries.financial support for gDMI from CRV (Arnhem, the Netherlands), ICBF (Cork, Ireland), CONAFE (Madrid, Spain), DairyCo (Warwickshire, UK) directly to the gDMI consortium, and The Natural Science and Engineering Research Council of Canada and DairyGen Council of Canadian Dairy Network (Guelph, ON, Canada) is gratefully appreciated, as well as the EU FP7 IRSES SEQSEL (Grant no. 317697).financial support for gDMI from CRV (Arnhem, the Netherlands), ICBF (Cork, Ireland), CONAFE (Madrid, Spain), DairyCo (Warwickshire, UK) directly to the gDMI consortium, and The Natural Science and Engineering Research Council of Canada and DairyGen Council of Canadian Dairy Network (Guelph, ON, Canada) is gratefully appreciated, as well as the EU FP7 IRSES SEQSEL (Grant no. 317697)

Tidal stream energy site assessment via three-dimensional model and measurements

Author Posting. © The Author(s), 2012. This is the author's version of the work. It is posted here by permission of Elsevier B.V. for personal use, not for redistribution. The definitive version was published in Applied Energy 102 (2013): 510-519, doi:10.1016/j.apenergy.2012.08.040.A methodology for assessment of the potential impacts of extraction of energy associated with astronomical tides is described and applied to a site on the Beaufort River in coastal South Carolina, U.S.A. Despite its name, the site features negligible freshwater inputs; like many in the region, it is a tidal estuary that resembles a river. A three-dimensional, numerical, hydrodynamic model was applied for a period exceeding a lunar month, allowing quantification of harmonic constituents of water level and velocity, and comparison to values derived from measurements, recorded at a location within the model domain. The measurement campaign included surveys of bathymetry and velocity fields during ebb and flood portions of a tidal cycle for model validation. Potential far-field impacts of a generic tidal energy conversion device were simulated by introducing an additional drag force in the model to enhance dissipation, resulting in 10-60% dissipation of the pre-existing kinetic power within a flow cross-section. The model reveals e ffects of the dissipation on water levels and velocities in adjacent areas, which are relatively small even at the 60% dissipation level. A method is presented to estimate the optimal vertical location for the energy conversion device and the potential power sacrificed by moving to a di fferent altitude.This work was supported by the U.S.Marine Corps, whose support is gratefully acknowledged

Measurement of Angular Distributions and R= sigma_L/sigma_T in Diffractive Electroproduction of rho^0 Mesons

Production and decay angular distributions were extracted from measurements of exclusive electroproduction of the rho^0(770) meson over a range in the virtual photon negative four-momentum squared 0.5< Q^2 <4 GeV^2 and the photon-nucleon invariant mass range 3.8< W <6.5 GeV. The experiment was performed with the HERMES spectrometer, using a longitudinally polarized positron beam and a ^3He gas target internal to the HERA e^{+-} storage ring. The event sample combines rho^0 mesons produced incoherently off individual nucleons and coherently off the nucleus as a whole. The distributions in one production angle and two angles describing the rho^0 -> pi+ pi- decay yielded measurements of eight elements of the spin-density matrix, including one that had not been measured before. The results are consistent with the dominance of helicity-conserving amplitudes and natural parity exchange. The improved precision achieved at 47 GeV, reveals evidence for an energy dependence in the ratio R of the longitudinal to transverse cross sections at constant Q^2.Comment: 15 pages, 15 embedded figures, LaTeX for SVJour(epj) document class Revision: Fig. 15 corrected, recent data added to Figs. 10,12,14,15; minor changes to tex