bluuebunny/crossref_metadata_2025_split huggingface dataset:
Period spacing of gravity modes strongly affected by rotation
Authors: Prat V. , Mathis S. , Lignières F. , Ballot J. , Culpin P.-M. 
Published: December 2016

Context. As of today, asteroseismology mainly allows us to probe the internal rotation of stars when modes are only weakly affected by rotation using perturbative methods. Such methods cannot be applied to rapidly rotating stars, which exhibit complex oscillation spectra. In this context, the so-called traditional approximation, which neglects the terms associated with the latitudinal component of the rotation vector, describes modes that are strongly affected by rotation. This approximation is sometimes used for interpreting asteroseismic data, however, its domain of validity is not established yet.
Aims. We aim at deriving analytical prescriptions for period spacings of low-frequency gravity modes strongly affected by rotation through the full Coriolis acceleration (i.e. without neglecting any component of the rotation vector), which can be used to probe stellar internal structure and rotation.
Methods. We approximated the asymptotic theory of gravito-inertial waves in uniformly rotating stars using ray theory described in a previous paper in the low-frequency regime, where waves are trapped near the equatorial plane. We put the equations of ray dynamics into a separable form and used the Einstein-Brillouin-Keller (EBK) quantisation method to compute modes frequencies from rays.
Results. Two spectral patterns that depend on stratification and rotation are predicted within this new approximation: one for axisymmetric modes and one for non-axisymmetric modes.
Conclusions. The detection of the predicted patterns in observed oscillation spectra would give constraints on internal rotation and chemical stratification of rapidly rotating stars exhibiting gravity modes, such as γ Doradus, SPB, or Be stars. The obtained results have a mathematical form that is similar to that of the traditional approximation, but the new approximation takes the full Coriolis, which allows for propagation near the centre, and centrifugal accelerations into account.
Printed highly conductive Cu films with strong adhesion enabled by low-energy photonic sintering on low-Tg flexible plastic substrate
Authors: Wu Xinzhou , Shao Shuangshuang , Chen Zheng , Cui Zheng 
Published: December 2016

Abstract
Copper (Cu) films and circuits were fabricated by screen-printing Cu nanoink on low-Tg (glass transition temperature) flexible plastic substrates (PEN and PET) instead of widely used high-Tg polyimide (PI) substrate. Photonic sintering of printed Cu films was carried out using intensive pulsed light (IPL). Low resistivities of 28 μΩ · cm on PEN and 44 μΩ · cm on PET were obtained without damaging the substrates. The sintered Cu films exhibited strong adhesion to PEN and PET substrates, with measured adhesion strength of 5B by the ASTM D3359 international standard, whereas the top part of the copper film on the PI substrate was stripped off during the adhesion test. The sintered Cu films also showed excellent stability in harsh conditions and mechanical flexibility in rolling tests. The underlying mechanisms of the high conductivity and strong adhesion on PEN and PET substrates with low-energy IPL sintering were investigated. Simple circuits and radio frequency identification antennas were made by screen-printing Cu nanoink and IPL sintering, demonstrating the technique’s feasibility for practical applications.
H-BLAST: a fast protein sequence alignment toolkit on heterogeneous computers with GPUs
Authors: Ye Weicai , Chen Ying , Zhang Yongdong , Xu Yuesheng 
Published: December 2016

Abstract

Motivation
The sequence alignment is a fundamental problem in bioinformatics. BLAST is a routinely used tool for this purpose with over 118 000 citations in the past two decades. As the size of bio-sequence databases grows exponentially, the computational speed of alignment softwares must be improved.

Results
We develop the heterogeneous BLAST (H-BLAST), a fast parallel search tool for a heterogeneous computer that couples CPUs and GPUs, to accelerate BLASTX and BLASTP—basic tools of NCBI-BLAST. H-BLAST employs a locally decoupled seed-extension algorithm for better performance on GPUs, and offers a performance tuning mechanism for better efficiency among various CPUs and GPUs combinations. H-BLAST produces identical alignment results as NCBI-BLAST and its computational speed is much faster than that of NCBI-BLAST. Speedups achieved by H-BLAST over sequential NCBI-BLASTP (resp. NCBI-BLASTX) range mostly from 4 to 10 (resp. 5 to 7.2). With 2 CPU threads and 2 GPUs, H-BLAST can be faster than 16-threaded NCBI-BLASTX. Furthermore, H-BLAST is 1.5–4 times faster than GPU-BLAST.

Availability and Implementation
https://github.com/Yeyke/H-BLAST.git

Supplementary information
Supplementary data are available at Bioinformatics online.
Upper limits on the mass and luminosity of Population III-dominated galaxies
Authors: Yajima Hidenobu , Khochfar Sadegh 
Published: December 2016

Abstract
We here derive upper limits on the mass and luminosity of Population III (POPIII) dominated proto-galaxies based on the collapse of primordial gas under the effect of angular momentum loss via Lyα radiation drag and the gas accretion on to a galactic centre. Our model predicts that POPIII-dominated galaxies at z ∼ 7 are hosted by haloes with Mh ∼ 1.5 × 108–1.1 × 109 M⊙, that they have Lyα luminosities of LLyα ∼ 3.0 × 1042–2.1 × 1043  erg s− 1, stellar mass of Mstar ∼ 0.8 × 105–2.5 × 106 M⊙ and outflowing gas with velocities Vout ∼ 40 km s− 1 due to Lyα radiation pressure. We show that the POPIII galaxy candidate CR7 violates the derived limits on stellar mass and Lyα luminosity and thus is unlikely to be a POPIII galaxy. POPIII-dominated galaxies at z ∼ 7 have He ii line emission that is ∼1–3 orders of magnitude lower than that of Lyα, they have high Lyα equivalent width of ≳ 300 Å and should be found close to bright star-forming galaxies. The He ii 1640 Å line is in comfortable reach of next generation telescopes, like the James Webb Space Telescope (JWST) or Thirty Meter Telescope (TMT).
How much a galaxy knows about its large-scale environment?: An information theoretic perspective
Authors: Pandey Biswajit , Sarkar Suman 
Published: December 2016

Abstract
The small-scale environment characterized by the local density is known to play a crucial role in deciding the galaxy properties but the role of large-scale environment on galaxy formation and evolution still remain a less clear issue. We propose an information theoretic framework to investigate the influence of large-scale environment on galaxy properties and apply it to the data from the Galaxy Zoo project that provides the visual morphological classifications of ∼1 million galaxies from the Sloan Digital Sky Survey. We find a non-zero mutual information between morphology and environment that decreases with increasing length-scales but persists throughout the entire length-scales probed. We estimate the conditional mutual information and the interaction information between morphology and environment by conditioning the environment on different length-scales and find a synergic interaction between them that operates up to at least a length-scales of ∼30  h−1 Mpc. Our analysis indicates that these interactions largely arise due to the mutual information shared between the environments on different length-scales.
AKARI near-infrared background fluctuations arise from normal galaxy populations
Authors: Helgason K. , Komatsu E. 
Published: December 2016

Abstract
We show that measurements of the fluctuations in the near-infrared background (NIRB) from the AKARI satellite can be explained by faint galaxy populations at low redshifts. We demonstrate this using reconstructed images from deep galaxy catalogues (Hawk-I UDS/GOODS Survey and S-Cosmic Assembly Deep Near-Infrared Extragalactic Legacy Survey) and two independent galaxy population models. In all cases, we find that the NIRB fluctuations measured by AKARI are consistent with faint galaxies and there is no need for a contribution from unknown populations. We find that a steep Rayleigh–Jeans spectrum for the underlying sources is not required as previously reported. The apparent Rayleigh–Jeans spectrum at large angular scales is likely a consequence of galaxies being removed systematically to deeper levels in the longer wavelength channels.
Outcomes Associated With Antimicrobial De-escalation of Treatment for Pneumonia Within the Veterans Healthcare Administration
Authors: Bohan Jefferson G. , Remington Richard , Jones Makoto , Samore Matthew , Madaras-Kelly Karl 
Published: December 2016

AbstractDe-escalation, an antimicrobial stewardship concept, involves narrowing broad-spectrum empiric antimicrobial therapy based on clinical data. Current health outcomes evidence is lacking to support de-escalation. Studying Veterans Healthcare Administration pneumonia patients, de-escalation was associated with improved length of stay without affecting 30-day readmission or 30-day Clostridium difficile infection rates.
Cox-nnet: an artificial neural network method for prognosis prediction on high-throughput omics data
Authors: Ching Travers , Zhu Xun , Garmire Lana X. 
Published: December 2016

AbstractArtificial neural networks (ANN) are computing architectures with massively parallel interconnections of simple neurons and has been applied to biomedical fields such as imaging analysis and diagnosis. We have developed a new ANN framework called Cox-nnet to predict patient prognosis from high throughput transcriptomics data. In over 10 TCGA RNA-Seq data sets, Cox-nnet achieves a statistically significant increase in predictive accuracy, compared to the other three methods including Cox-proportional hazards (Cox-PH), Random Forests Survival and CoxBoost. Cox-nnet also reveals richer biological information, from both pathway and gene levels. The outputs from the hidden layer node can provide a new approach for survival-sensitive dimension reduction. In summary, we have developed a new method for more accurate and efficient prognosis prediction on high throughput data, with functional biological insights. The source code is freely available atgithub.com/lanagarmire/cox-nnet.
Cell-to-cell variability in the yeast pheromone response: Cytoplasmic microtubule function stabilizes signal generation and promotes accurate fate choice
Authors: Pesce C.G. , Zdraljevic S. , Bush A. , Repetto V. , Peria W. , Yu R.C. , Colman-Lerner A. , Brent R. 
Published: December 2016

AbstractIn a companion paper, we carried out a high-throughput screen to identify genes that suppressed cell-to-cell variability in signaling in yeast. Two genes affected cytoplasmic microtubules that can connect the nucleus to a signaling site on the membrane. Here, we show that microtubule perturbations that affected polymerization and depolymerization, membrane attachment, and force generation increased variability. For some perturbations, "outlier" cells drove the increased variability. Bypass experiments that activated the PRS ectopically at downstream points indicated that microtubule-dependent processes might stabilize the membrane-recruited scaffold protein Ste5. The variability caused by microtubule perturbations required the MAP kinase Fus3. Microtubule perturbations hindered stable scaffold formation and decreased the accuracy of a polarity-dependent fate choice. Our experiments suggest that membrane-attached microtubules stabilize signaling by scaffold-bound Fus3, and are consistent with a model in which signaling irregularities from changes in microtubule function are amplified by cross-stimulatory feedbacks among PRS proteins. The fact that microtubule perturbations also cause aberrant fate and polarity decisions during embryonic development and cancer initiation suggests that similar variation-reducing processes might also operate in metazoans.
Deploying dengue-suppressingWolbachia:robust models predict slow but effective spatial spread inAedes aegypti
Authors: Turelli Michael , Barton Nicholas H. 
Published: December 2016

AbstractA novel strategy for controlling the spread of arboviral diseases such as dengue, Zika and chikungunya is to transform mosquito populations with virus-suppressingWolbaehia. In general,Wolbachiatransinfected into mosquitoes induce fitness costs through lower viability or fecundity. These maternally inherited bacteria also produce a frequency-dependent advantage for infected females by inducing cytoplasmic incompatibility (CI), which kills the embryos produced by uninfected females mated to infected males. These competing effects, a frequency-dependent advantage and frequency-independent costs, produce bistableWolbachiafrequency dynamics. Above a threshold frequency, denotedp̂, CI drives fitness-decreasingWolbachiatransinfections through local populations; but belowp̂, infection frequencies tend to decline to zero. Ifp̂is not too high, CI also drives spatial spread once infections become established over sufficiently large areas. We illustrate how simple models provide testable predictions concerning the spatial and temporal dynamics ofWolbachiaintroductions, focusing on rate of spatial spread, the shape of spreading waves, and the conditions for initiating spread from local introductions. First, we consider the robustness of diffusion-based predictions to incorporating two important features ofwMel-Aedes aegyptibiology that may be inconsistent with the diffusion approximations, namely fast local dynamics induced by complete CI (i.e., all embryos produced from incompatible crosses die) and long-tailed, non-Gaussian dispersal. With complete CI, our numerical analyses show that long-tailed dispersal changes wave-width predictions only slightly; but it can significantly reduce wave speed relative to the diffusion prediction; it also allows smaller local introductions to initiate spatial spread. Second, we use approximations forp̂and dispersal distances to predict the outcome of 2013 releases ofwMel-infectedAedes aegyptiin Cairns, Australia, Third, we describe new data fromAedes aegyptipopulations near Cairns, Australia that demonstrate long-distance dispersal and provide an approximate lower bound onp̂forwMel in northeastern Australia. Finally, we apply our analyses to produce operational guidelines for efficient transformation of vector populations over large areas. We demonstrate that even very slow spatial spread, on the order of 10-20 m/month (as predicted), can produce area-wide population transformation within a few years following initial releases covering about 20-30% of the target area.
Control chart for high-quality processes based on Six Sigma quality
Authors: Joghee Ravichandran 
Published: December 2016

Purpose
The purpose of this paper is to develop an innovative and quite new Six Sigma quality control (SSQC) chart for the benefit of Six Sigma practitioners. A step-by-step procedure for the construction of the chart is also given.

Design/methodology/approach
Under the assumption of normality, in this paper, the construction of SSQC chart is proposed in which the population mean and standard deviation are drawn from the process specification from the perspective of Six Sigma quality (SSQ). In this chart, the concept of target range is used to restrict the shift in the process within plus or minus 1.5 times of standard deviation. This control chart is useful in monitoring the process to ensure that the process is well maintained within the specification limits with minimum variation (shift).

Findings
A step-by-step procedure is given for the construction of the proposed SSQC chart. It can be easily understood and its application is also simple for Six Sigma practitioners. The proposed chart suggests for timely improvements in process mean and variation. The illustrative example shows the improved performance of the proposed new procedure.

Research limitations/implications
The proposed approach assumes a normal population described by the known specification of the process/product characteristics though it may not be in all cases. This may call for a thorough study of the population before applying the chart.

Practical implications
The proposed SSQC chart is an innovative approach and is quite new for the practitioners. The paper assumes that the population standard deviation is known and is drawn from the specification of the process/product characteristics. The proposed chart helps in fine-tuning the process mean and bringing the process standard deviation to the satisfactory level from the perspective of SSQ.

Originality/value
The paper is the first of its kind. It is innovative and quite new to the Six Sigma practitioners who will find its application interesting.
Development and evaluation of android-based library stocktaking application using NFC Technology: a case study in Bina Nusantara University
Authors: Wibisurya Aswin , Karya San , Heriyanni Eileen 
Published: December 2016

Purpose
The purpose of this paper is to develop and evaluate a mobile application to facilitate stocktaking in libraries implementing radio frequency identification. The case of Bina Nusantara University’s library is used in this study. In this kind of library, near field communication (NFC) tags are placed in the book for getting book information, borrowing or returning and theft prevention, so the application. Stocktaking is an important process to be performed periodically to monitor and maintain the quality of collections and to make these collections easily accessible for library users. However, stocktaking in libraries takes too much effort and needs to be more efficient.

Design/methodology/approach
The design of the mobile application using entity relationship diagram (ERD) includes a diagram and flowchart. An evaluation is done by comparing the stocktaking effort of the latest semester and the previous semester. In the latest semester, the stocktaking is done by a hybrid of the proposed mobile application and a legacy desktop application, whereas the stocktaking of the previous semester is done only using the legacy desktop application.

Findings
Evaluation of the usage of this mobile stocktaking application is 43 per cent more efficient compared to an older desktop application.

Originality/value
The authors report the development of Android-based mobile stocktaking application by using Android’s NFC feature and evaluate it in a real environment.
Commissioning Human Services: Lessons from Australian Convict Contracting
Authors: Sturgess Gary L. , Argyrous George , Rahman Sara 
Published: December 2016

AbstractThe transportation of convicts to the British penal colony at New South Wales in the late 18th and early 19th centuries was largely undertaken by private merchants under contract to government. In the early years, the outcomes of this system, as measured by mortality rates, were mixed, but by the turn of the century, public officials had refined its operation, resulting in a significant decline in convict deaths. Close study of the evolution of this system reveals that government officials were grappling with many of the same issues encountered by public service commissioners today – trade‐offs between price and quality, the use of transactional versus relational contracting forms, and heavy reliance on financial incentives as opposed to intrinsic motivation. Government's success in reducing mortality on the convict ships highlights the importance of system design, effective monitoring and management when public services are delivered under contract.
Effect of different treatments on the stability of lysozyme, lactoferrin and β‐lactoglobulin in donkey's milk
Authors: Ozturkoglu‐Budak Sebnem 
Published: December 2016

The aim of this study was to investigate the effects of freezing and heat treatments at different temperatures on the stability of the main whey proteins of donkey milk in comparison with those obtained from colostrum and raw milk. Samples subjected to heat treatment at 85 °C showed greater loss of stability, with levels decreasing by 60% and 87% for lysozyme and β‐lactoglobulin, respectively. Lactoferrin completely disappeared at heat treatments higher than 65 °C. Colostrum contained the highest lactoferrin and β‐lactoglobulin concentrations, however, lysozyme was found to be present at similar concentrations in colostrum, raw, frozen and heat‐treated milk at temperatures lower than 85 °C.
Genomic investigation of piglet resilience following porcine epidemic diarrhea outbreaks
Authors: Bertolini F. , Harding J. C. S. , Mote B. , Ladinig A. , Plastow G. S. , Rothschild M. F. 
Published: December 2016

SummaryPorcine epidemic diarrhea virus (PEDV) belongs to the Coronaviridae family and causes malabsorptive watery diarrhea, vomiting, dehydration and imbalanced blood electrolytes in pigs. Since the 1970s, PED outbreaks have become a source of problems in pig producing countries all over the world, causing large economic losses for pig producers. Although the infection in adults is not fatal, in naïve suckling piglets mortality is close to 100%. In this study, we investigated genome‐wide differences between dead and recovered suckling piglets from commercial farms after PED outbreaks. Samples from 262 animals (156 dead and 106 recovered) belonging to several commercial lines were collected from five different farms in three different countries (USA, Canada and Germany) and genotyped with the porcine 80K SNP chip. Mean Fst value was calculated in 1‐Mb non‐overlapping windows between dead and recovered individuals, and the results were normalized to find differences within the comparison. Seven windows with high divergence between dead and recovered were detected—five on chromosome 2, one on chromosome 4 and one on chromosome 15—in total encompassing 152 genes. Several of these genes are either under‐ or overexpressed in many virus infections, including Coronaviridae (such as SARS‐CoV). A total of 32 genes are included in one or more Gene Ontology terms that can be related to PED development, such as Golgi apparatus, as well as mechanisms generally linked to resilience or diarrhea development (cell proliferation, ion transport, ATPase activity). Taken together this information provides a first genomic picture of PEDV resilience in suckling piglets.
Race, Representation, and the Voting Rights Act
Authors: Schuit Sophie , Rogowski Jon C. 
Published: December 2016

AbstractDespite wide scholarly interest in the Voting Rights Act, surprisingly little is known about how its specific provisions affected Black political representation. In this article, we draw on theories of electoral accountability to evaluate the effect of Section 5 of the Voting Rights Act, the preclearance provision, on the representation of Black interests in the 86th to 105th congresses. We find that members of Congress who represented jurisdictions subject to the preclearance requirement were substantially more supportive of civil rights–related legislation than legislators who did not represent covered jurisdictions. Moreover, we report that the effects were stronger when Black voters composed larger portions of the electorate and in more competitive districts. This result is robust to a wide range of model specifications and empirical strategies, and it persists over the entire time period under study. Our findings have especially important implications given the Supreme Court's recent decision in Shelby County v. Holder.