bluuebunny/crossref_metadata_2025_split huggingface dataset:
Multi‐hazard reliability assessment of offshore wind turbines
Authors: Mardfekri Maryam , Gardoni Paolo 
Published: May 2014

AbstractA probabilistic framework is developed to assess the structural performance of offshore wind turbines under multiple hazards. A multi‐hazard fragility surface of a given wind turbine support structure and the seismic and wind hazards at a specific site location are incorporated into the probabilistic framework to assess the structural damage due to multiple hazards. A database of virtual experiments is generated using detailed three‐dimensional finite element analyses of a set of typical wind turbine systems subject to extreme wind speeds and earthquake ground motions. The generated data are used to develop probabilistic models to predict the shear and moment demands on support structures. A Bayesian approach is used to assess the model parameters incorporating the information from virtual experiment data. The developed demand models are then used to estimate the fragility of the support structure of a given wind turbine. As an example of the proposed framework, the annual probabilities of the occurrence of different structural damage levels are calculated for two identical wind turbines, one located in the Gulf of Mexico of the Texas Coast (prone to hurricanes) and one off the California Coast (a high seismic region). Copyright © 2014 John Wiley & Sons, Ltd.
Characterization of acetoin production in a budC gene disrupted mutant of Serratia marcescens G12
Authors: Gao Songsong , Guo Wenyi , Shi Litao , Yu Yue , Zhang Cuikun , Yang Hongjiang 
Published: May 2014

Abstract
The 2,3-butanediol (2,3-BD) dehydrogenase gene budC of Serratia marcescens G12 was disrupted to construct the acetoin (AC) producing strain G12M. In shake-flask cultures, AC production was enhanced by increased concentrations of glucose or sodium acetate in G12M. In fed-batch fermentation, G12M produced 47.5 g/L AC along with 9.8 g/L 2,3-BD. The expression of the key enzymes for AC synthesis was further investigated. Alpha-acetolactate synthase gene budB decreased its expression significantly in G12M compared with G12. This probably explained the moderate AC production in G12M cultures. Additionally, overexpression of budB gene and α-acetolactate decarboxylase gene budA was conducted in G12M and no significant increase of AC was observed. The results suggested that intracellular AC accumulation might inhibit the expression of budB and budA gene and induce budC gene expression in G12M. Our analyses offered the bases for further genetic manipulations in improving AC production in microbial fermentations.
The high-Reynolds-number asymptotic development of nonlinear equilibrium states in plane Couette flow
Authors: Deguchi Kengo , Hall Philip 
Published: May 2014

AbstractThe relationship between nonlinear equilibrium solutions of the full Navier–Stokes equations and the high-Reynolds-number asymptotic vortex–wave interaction (VWI) theory developed for general shear flows by Hall & Smith (J. Fluid Mech., vol. 227, 1991, pp. 641–666) is investigated. Using plane Couette flow as a prototype shear flow, we show that all solutions having $\def \xmlpi #1{}\def \mathsfbi #1{\boldsymbol {\mathsf {#1}}}\let \le =\leqslant \let \leq =\leqslant \let \ge =\geqslant \let \geq =\geqslant \def \Pr {\mathit {Pr}}\def \Fr {\mathit {Fr}}\def \Rey {\mathit {Re}}O(1)$ wavenumbers converge to VWI states with increasing Reynolds number. The converged results here uncover an upper branch of VWI solutions missing from the calculations of Hall & Sherwin (J. Fluid Mech., vol. 661, 2010, pp. 178–205). For small values of the streamwise wavenumber, the converged lower-branch solutions take on the long-wavelength state of Deguchi, Hall & Walton (J. Fluid Mech., vol. 721, 2013, pp. 58–85) while the upper-branch solutions are found to be quite distinct, with new states associated with instabilities of jet-like structures playing the dominant role. Between these long-wavelength states, a complex ‘snaking’ behaviour of solution branches is observed. The snaking behaviour leads to complex ‘entangled’ states involving the long-wavelength states and the VWI states. The entangled states exhibit different-scale fluid motions typical of those found in shear flows.
Experimental investigation of flow behind a cube for moderate Reynolds numbers
Authors: Klotz L. , Goujon-Durand S. , Rokicki J. , Wesfreid J. E. 
Published: May 2014

AbstractThe wake behind a cube with a face normal to the flow was investigated experimentally in a water tunnel using laser induced fluorescence (LIF) visualisation and particle image velocimetry (PIV) techniques. Measurements were carried out for moderate Reynolds numbers between 100 and 400 and in this range a sequence of two flow bifurcations was confirmed. Values for both onsets were determined in the framework of Landau’s instability model. The measured longitudinal vorticity was separated into three components corresponding to each of the identified regimes. It was shown that the vorticity associated with a basic flow regime originates from corners of the bluff body, in contrast to the two other contributions which are related to instability effects. The present experimental results are compared with numerical simulation carried out earlier by Saha (Phys. Fluids, vol. 16, 2004, pp. 1630–1646).
A numerical study of the dynamics of a particle settling at moderate Reynolds numbers in a linearly stratified fluid
Authors: Doostmohammadi A. , Dabiri S. , Ardekani A. M. 
Published: May 2014

AbstractIn this paper, the transient settling dynamics of a spherical particle sedimenting in a linearly stratified fluid is investigated by performing fully resolved direct numerical simulations. The settling behaviour is quantified for different values of Reynolds, Froude and Prandtl numbers. It is demonstrated that the transient settling dynamics is correlated to the induced Lagrangian drift of flow around the settling particle. A simplified model is provided to predict the maximum velocity of the settling particle in linearly stratified fluids. The peak velocity can be followed by the oscillation of the settling velocity and the particle can even reverse its direction of motion before reaching to its neutrally buoyant level. The frequency of oscillation of settling velocity scales with the Brunt–Väisälä frequency and the motion of the particle can lead to the formation of secondary and tertiary vortices following the primary vortex.
Prediction of the hub vortex instability in a wind turbine wake: stability analysis with eddy-viscosity models calibrated on wind tunnel data
Authors: Viola F. , Iungo G. V. , Camarri S. , Porté-Agel F. , Gallaire F. 
Published: May 2014

AbstractThe instability of the hub vortex observed in wind turbine wakes has recently been studied by Iungo et al. (J. Fluid Mech., vol. 737, 2013, pp. 499–526) via local stability analysis of the mean velocity field measured through wind tunnel experiments. This analysis was carried out by neglecting the effect of turbulent fluctuations on the development of the coherent perturbations. In the present paper, we perform a stability analysis taking into account the Reynolds stresses modelled by eddy-viscosity models, which are calibrated on the wind tunnel data. This new formulation for the stability analysis leads to the identification of one clear dominant mode associated with the hub vortex instability, which is the one with the largest overall downstream amplification. Moreover, this analysis also predicts accurately the frequency of the hub vortex instability observed experimentally. The proposed formulation is of general interest for the stability analysis of swirling turbulent flows.
Ion energy enhancement from TNSA plasmas obtained from advanced targets
Authors: Torrisi L. 
Published: May 2014

AbstractLaser generated plasmas from target normal sheath acceleration produce energetic ions from the rear side of the target due to the formation of a high directive electric field. Fast electrons are ejected from the rear side of the target and a successive Coulomb explosion is driven by the fast electrons generating a high electric field of double layer. The ion acceleration is mainly controlled by the laser intensity and by the square of the laser wavelength. Literature reports that at intensities of the order of 1018 W/cm2 and at wavelengths of about 1 µm the ion energy is of the order of 5 MeV/nucleon. The use of advanced targets realized with the aim to reduce the surface reflection, to increase the laser absorption coefficient and, with an optimal thickness, to increase the electric field of the double layer, permits to enhance the ion energy acceleration, so that the energy of 5.0 MeV per charge state can be reached at about 1016 W/cm2, as it will be presented and discussed.
Prevention of measles spread on a paediatric ward
Authors: TAPISIZ A. , POLAT M. , KARA S. S. , TEZER H. , SIMSEK H. , AKTAS F. 
Published: May 2014

SUMMARYSince measles is a highly contagious respiratory infection with significant airborne transmission risk in hospitals, effective prevention measures are crucial. After a mother accompanying her child on a paediatric ward lacking a negative pressure room was diagnosed with measles, exposed persons without evidence of immunity (documentary evidence of receiving two doses of measles-mumps-rubella vaccine) were treated with vaccination or intravenous immunoglobulin (IVIG). The interruption of transmission with these treatments was evaluated. There were 44 children and 101 adults exposed to the index patient. Twenty-five children and 88 adults were considered immune, providing evidence of immunity. Nineteen children and 13 adults were either given vaccination or IVIG for post-exposure prophylaxis (PEP). There were no additional cases of measles after 3 weeks follow-up. We conclude that measles is highly preventable by adequate PEP with vaccination or IVIG in a healthcare setting that lacks the benefit of a negative pressure room.
Mehrfachdiagnosen bei Schweizer Heimjugendlichen
Authors: Dölitzsch Claudia , Fegert Jörg M. , Künster Anne , Kölch Michael , Schmeck Klaus , Schmid Marc 
Published: May 2014

Personen, die unter mehreren, insbesondere ätiologisch und symptomatologisch sehr unterschiedlichen psychischen Erkrankungen leiden, stellen eine besondere Herausforderung für die Behandelnden dar. Heimjugendliche akkumulieren biopsychosoziale Risikofaktoren, weshalb sie eine hohe Prävalenz an komorbiden psychischen Erkrankungen aufweisen. In der Schweiz mangelte es bisher an epidemiologischen Untersuchungen von Kindern und Jugendlichen in Heimeinrichtungen. Mit 483 in Schweizer sozialpädagogischen Einrichtungen platzierten Heranwachsenden im Alter von 6 bis 25 Jahren wurden klinische Interviews zur Diagnostik psychischer Störungen durchgeführt. Zur Verdeutlichung der Komplexität der vorliegenden komorbiden Störungen wurden Diagnosegruppen in Anlehnung an die von Andrews et al. (2009) vorgeschlagenen Symptomcluster gebildet. Die Prävalenz psychischer Störungen lag bei 74 %. Von den Betroffenen erfüllten 60 % die Kriterien für mehrere Diagnosen, etwa 25 % litten an komplexen psychischen Störungen mit emotionalen und externalisierenden Symptomen. Eine sorgfältige und individuell angepasste kinder-/jugendpsychiatrische/-psychotherapeutische Behandlungsplanung in enger Zusammenarbeit mit den sozialpädagogischen Fachkräften erscheint hier dringend indiziert. Demgegenüber fehlen bislang sowohl in der Grundlagen-, der Psychotherapie- als auch der Versorgungsforschung ätiologische Modelle und Interventionsansätze, die dieser Komplexität gerecht werden.
Interferometry with non-classical motional states of a Bose–Einstein condensate
Authors: van Frank S. , Negretti A. , Berrada T. , Bücker R. , Montangero S. , Schaff J.-F. , Schumm T. , Calarco T. , Schmiedmayer J. 
Published: May 2014

AbstractThe Ramsey interferometer is a prime example of precise control at the quantum level. It is usually implemented using internal states of atoms, molecules or ions, for which powerful manipulation procedures are now available. Whether it is possible to control external degrees of freedom of more complex, interacting many-body systems at this level remained an open question. Here we demonstrate a two-pulse Ramsey-type interferometer for non-classical motional states of a Bose–Einstein condensate in an anharmonic trap. The control sequences used to manipulate the condensate wavefunction are obtained from optimal control theory and are directly optimized to maximize the interferometric contrast. They permit a fast manipulation of the atomic ensemble compared to the intrinsic decay processes and many-body dephasing effects. This allows us to reach an interferometric contrast of 92% in the experimental implementation.
Integrating artificial with natural cells to translate chemical messages that direct E. coli behaviour
Authors: Lentini Roberta , Santero Silvia Perez , Chizzolini Fabio , Cecchi Dario , Fontana Jason , Marchioretto Marta , Del Bianco Cristina , Terrell Jessica L. , Spencer Amy C. , Martini Laura , Forlin Michele , Assfalg Michael , Serra Mauro Dalla , Bentley William E. , Mansy Sheref S. 
Published: May 2014

AbstractPrevious efforts to control cellular behaviour have largely relied upon various forms of genetic engineering. Once the genetic content of a living cell is modified, the behaviour of that cell typically changes as well. However, other methods of cellular control are possible. All cells sense and respond to their environment. Therefore, artificial, non-living cellular mimics could be engineered to activate or repress already existing natural sensory pathways of living cells through chemical communication. Here we describe the construction of such a system. The artificial cells expand the senses of Escherichia coli by translating a chemical message that E. coli cannot sense on its own to a molecule that activates a natural cellular response. This methodology could open new opportunities in engineering cellular behaviour without exploiting genetically modified organisms.
Atomic-scale configurations of synchroshear-induced deformation twins in the ionic MnS crystal
Authors: Zhou Y. T. , Xue Y. B. , Chen D. , Wang Y. J. , Zhang B. , Ma X. L. 
Published: May 2014

AbstractDeformation twinning was thought as impossible in ionic compounds with rock-salt structure due to the charge effect on {111} planes. Here we report the presence and formation mechanism of deformation {111} twins in the rock-salt manganese sulphide (MnS) inclusions embedded in a hot-rolled stainless steel. Based on the atomic-scale mapping under aberration-corrected scanning transmission electron microscopy, a dislocation-based mechanism involved two synchronized shear on adjacent atomic layers is proposed to describe the dislocation glide and consequently twinning formation. First-principles calculations of the energy barriers for twinning formation in MnS and comparing with that of PbS and MgO indicate the distinct dislocation glide scheme and deformation behaviors for the rock-salt compounds with different ionicities. This study may improve our understanding of the deformation mechanisms of rock-salt crystals and other ionic compounds.
Targeting RPL39 and MLF2 reduces tumor initiation and metastasis in breast cancer by inhibiting nitric oxide synthase signaling
Authors: Dave Bhuvanesh , Granados-Principal Sergio , Zhu Rui , Benz Stephen , Rabizadeh Shahrooz , Soon-Shiong Patrick , Yu Ke-Da , Shao Zhimin , Li Xiaoxian , Gilcrease Michael , Lai Zhao , Chen Yidong , Huang Tim H.-M. , Shen Haifa , Liu Xuewu , Ferrari Mauro , Zhan Ming , Wong Stephen T. C. , Kumaraswami Muthiah , Mittal Vivek , Chen Xi , Gross Steven S. , Chang Jenny C. 
Published: May 2014

Significance
This manuscript describes the identification and characterization of two previously unidentified cancer genes, ribosomal protein L39 and myeloid leukemia factor 2, that play an important role in tumor initiation and metastasis. Knockdown of these genes in triple negative breast cancer (TNBC) models significantly reduces primary-tumor growth, as well as metastasis. Mutations in these genes are associated with worse survival in breast-cancer patients. Both genes are regulated by the nitric oxide signaling pathway. Identification of these two genes represents a significant breakthrough in our understanding of treatment resistance in TNBC. Targeting these genes could alter clinical practice for tumor metastasis in future and improve outcomes of patients with breast cancer.
PatternCNV: a versatile tool for detecting copy number changes from exome sequencing data
Authors: Wang Chen , Evans Jared M. , Bhagwate Aditya V. , Prodduturi Naresh , Sarangi Vivekananda , Middha Mridu , Sicotte Hugues , Vedell Peter T. , Hart Steven N. , Oliver Gavin R. , Kocher Jean-Pierre A. , Maurer Matthew J. , Novak Anne J. , Slager Susan L. , Cerhan James R. , Asmann Yan W. 
Published: May 2014

Abstract
Motivation: Exome sequencing (exome-seq) data, which are typically used for calling exonic mutations, have also been utilized in detecting DNA copy number variations (CNVs). Despite the existence of several CNV detection tools, there is still a great need for a sensitive and an accurate CNV-calling algorithm with built-in QC steps, and does not require a paired reference for each sample.
Results: We developed a novel method named PatternCNV, which (i) accounts for the read coverage variations between exons while leveraging the consistencies of this variability across different samples; (ii) reduces alignment BAM files to WIG format and therefore greatly accelerates computation; (iii) incorporates multiple QC measures designed to identify outlier samples and batch effects; and (iv) provides a variety of visualization options including chromosome, gene and exon-level views of CNVs, along with a tabular summarization of the exon-level CNVs. Compared with other CNV-calling algorithms using data from a lymphoma exome-seq study, PatternCNV has higher sensitivity and specificity.
Availability and implementation: The software for PatternCNV is implemented using Perl and R, and can be used in Mac or Linux environments. Software and user manual are available at http://bioinformaticstools.mayo.edu/research/patterncnv/ , and R package at https://github.com/topsoil/patternCNV/ .
Contact: Asmann.Yan@mayo.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
The determination of data-poor catch limits in the United States: is there a better way?
Authors: Berkson Jim , Thorson James T. 
Published: May 2014

Abstract
Methods for determining appropriate management actions for data-poor stocks, including annual catch limits (ACLs), have seen an explosion of research interest in the past decade. We perform an inventory of methods for determining ACLs for stocks in the United States, and find that ACLs are assigned to 371 stocks and/or stock complexes with 193 (52%) determined using methods involving catch data only. The proportion of ACLs involving these methods varies widely among fisheries management regions, with all the 67 ACLs in the Caribbean determined using recent catch when compared with 1 of 33 ACLs in the New England region (US Northeast). Given this prevalence of data-poor ACLs, we recommend additional research regarding the potential effectiveness of simple management procedures for data-poor stocks that are currently managed using ACLs. In particular, simple management procedures may allow a broader range of data types and management instruments that better suit the particulars of individual regions and stocks.
General Anesthetic Isoflurane Modulates Inositol 1,4,5-Trisphosphate Receptor Calcium Channel Opening
Authors: Joseph J. Donald , Peng Yi , Mak Don-On Daniel , Cheung King-Ho , Vais Horia , Foskett J. Kevin , Wei Huafeng 
Published: May 2014

Abstract

Background:
Pharmacological evidence suggests that inhalational general anesthetics induce neurodegeneration in vitro and in vivo through overactivation of inositol trisphosphate receptor (InsP3R) Ca2+-release channels, but it is not clear whether these effects are due to direct modulation of channel activity by the anesthetics.

Methods:
Using single-channel patch clamp electrophysiology, the authors examined the gating of rat recombinant type 3 InsP3R (InsP3R-3) Ca2+-release channels in isolated nuclei (N = 3 to 15) from chicken lymphocytes modulated by isoflurane at clinically relevant concentrations in the absence and presence of physiological levels of the agonist inositol 1,4,5-trisphosphate (InsP3). The authors also examined the effects of isoflurane on InsP3R-mediated Ca2+ release from the endoplasmic reticulum and changes in intracellular Ca2+ concentration ([Ca2+]i).

Results:
Clinically relevant concentrations (approximately 1 minimal alveolar concentration) of the commonly used general anesthetic, isoflurane, activated InsP3R-3 channels with open probability similar to channels activated by 1 µM InsP3 (P
o ≈ 0.2). This isoflurane modulation of InsP3R-3 P
o depended biphasically on [Ca2+]i. Combination of isoflurane with subsaturating levels of InsP3 in patch pipettes resulted in at least two-fold augmentations of InsP3R-3 channel P
o compared with InsP3 alone. These effects were not noted in the presence of saturating [InsP3]. Application of isoflurane to DT40 cells resulted in a 30% amplification of InsP3R-mediated [Ca2+]i oscillations, whereas InsP3-induced increase in [Ca2+]i and cleaved caspase-3 activity were enhanced by approximately 2.5-fold.

Conclusion:
These results suggest that the InsP3R may be a direct molecular target of isoflurane and plays a role in the mechanisms of anesthetic-mediated pharmacological or neurotoxic effects.
Long-term Treatment Outcomes for Locally Advanced Esophageal Cancer
Authors: Sio Terence T. , Wilson Zachary C. , Stauder Michael C. , Bhatia Sumita , Martenson James A. , Quevedo J. Fernando , Schomas David A. , Miller Robert C. 
Published: May 2014

Objectives:
To determine long-term outcomes in patients with locally advanced esophageal carcinoma treated with trimodality therapy (chemoradiotherapy [CRT] and surgery, TMT) or definitive CRT.

Methods:
We retrospectively identified patients with advanced esophageal carcinoma treated with curative intent at our institution between 1998 and 2004. Identified patients were separated into 3 groups: patients who received TMT, patients who received CRT, and patients who began treatment with trimodality intent but did not undergo surgery (PTMT). Local control, overall survival (OS), and distant metastasis-free survival were compared using Kaplan-Meier statistics.

Results:
Among the 265 patients included, median follow-up was 6.4 years for surviving patients and 1.7 years for all patients. Type of esophageal cancer was adenocarcinoma in 213 patients (80%) and squamous cell carcinoma in 46 patients (17%). Treatment groups comprised 169 patients (64%) completing TMT, 46 patients medically unable to undergo surgery after neoadjuvant therapy (PTMT), and 50 (19%) who underwent CRT. Median OS was 20.5 months; actuarial 5- and 10-year OS were 27% and 12%, respectively. The TMT group had the highest 5- and 10-year OS (32% and 19%, respectively). Local control rates at 2, 5, and 10 years for all patients were 80%, 70%, and 69%, respectively. By treatment modality, 5-year local control was best (82%) for TMT, compared with 60% for CRT and 40% for PTMT groups (P<0.001).

Conclusions:
Patients who completed TMT had the best local control and long-term OS. In the context of TMT, surgery seemed more beneficial in patients with esophageal adenocarcinoma versus squamous cell carcinoma.