bluuebunny/crossref_metadata_2025_split huggingface dataset:
Possibility of cost reduction by mutant clustering according to the clustering scope
Authors: Yu Misun , Ma Yu‐Seung 
Published: November 2018

SummaryMutation testing offers developers a good way to improve the quality of a test set. However, the high cost of executing a large number of mutants remains an issue. This paper examines the possibility of reducing the cost of statement‐level mutant clustering by comparing the number of mutant executions with those of expression‐level and block‐level mutant clustering. The goal is to investigate to what extent the clustering scope should be extended. The experimental results using nine real‐world programs show that statement‐level clustering can reduce the mutant executions that are required by expression‐level clustering by 10.51% on average. Block‐level clustering exhibits an unexpected result; the number of mutant executions with block‐level clustering is only 1.06% times less than that with statement‐level clustering. That is, statement‐level clustering is more cost‐effective than block‐level clustering when considering their clustering overheads. A compound expression plays a major role in providing a cost‐reduction effect in statement‐level clustering. With a compound expression, the number of candidate mutants to be clustered in a statement scope increases, and state change can be comprehensively examined, thereby increasing the possibility of cost reduction. © 2018 John Wiley & Sons, Ltd.
Correction to: Clinical significance of intratumoral HER2 heterogeneity on trastuzumab efficacy using endoscopic biopsy specimens in patients with advanced HER2 positive gastric cancer
Authors: Yagi Shusuke , Wakatsuki Takeru , Yamamoto Noriko , Chin Keisho , Takahari Daisuke , Ogura Mariko , Ichimura Takashi , Nakayama Izuma , Osumi Hiroki , Shinozaki Eiji , Suenaga Mitsukuni , Fujisaki Junko , Ishikawa Yuichi , Yamaguchi Kensei , Namikawa Ken , Horiuchi Yusuke 
Published: November 2018

In the original publication of this article, Table 4 was published incorrectly. The correct Table 4 is given below.
Multiple-step chromosomal integration of divided segments from a large DNA fragment via CRISPR/Cas9 in Escherichia coli
Authors: Li Yanjun , Yan Fangqing , Wu Heyun , Li Guoliang , Han Yakun , Ma Qian , Fan Xiaoguang , Zhang Chenglin , Xu Qingyang , Xie Xixian , Chen Ning 
Published: November 2018

Abstract
Although CRISPR/Cas9-mediated gene editing technology has developed vastly in Escherichia coli, the chromosomal integration of large DNA fragment is still challenging compared with gene deletion and small fragment integration. Moreover, to guarantee sufficient Cas9-induced double-strand breaks, it is usually necessary to design several gRNAs to select the appropriate one. Accordingly, we established a practical daily routine in the laboratory work, involving multiple-step chromosomal integration of the divided segments from a large DNA fragment. First, we introduced and optimized the protospacers from Streptococcus pyogenes in E. coli W3110. Next, the appropriate fragment size for each round of integration was optimized to be within 3–4 kb. Taking advantage of the optimized protospacer/gRNA pairs, a DNA fragment with a total size of 15.4 kb, containing several key genes for uridine biosynthesis, was integrated into W3110 chromosome, which produced 5.6 g/L uridine in shake flask fermentation. Using this strategy, DNA fragments of virtually any length can be integrated into a suitable genomic site, and two gRNAs can be alternatively used, avoiding the tedious construction of gRNA-expressing plasmids. This study thus presents a useful strategy for large DNA fragment integration into the E. coli chromosome, which can be easily adapted for use in other bacteria.
Steroid-resistentes nephrotisches Syndrom
Authors: Hoefele Julia , Beck Bodo B. , Weber Lutz T. , Brinkkötter Paul 
Published: November 2018

ZusammenfassungDas steroid-resistente nephrotische Syndrom (SRNS) mit dem histomorphologischen Korrelat der fokal-segmentalen Glomerulosklerose (FSGS) stellt eine bedeutende Ursache für eine terminale Niereninsuffizienz im Kindesalter, aber auch bei erwachsenen Patienten dar. Das Erkrankungsspektrum zeichnet sich durch eine große genetische Heterogenität aus, wobei auch nicht genetische Ursachen bei der FSGS beobachtet werden. Die genetische Grundlage des SRNS/FSGS-Komplexes ist v. a. für ältere Kinder/Jugendliche und Erwachsene bisher noch unzureichend verstanden. Die eindeutige Abgrenzung genetischer SRNS/FSGS-Ursachen ist unerlässlich, da sich bereits heute hieraus eine Vielzahl an klinischen Implikationen ergeben. Die Identifikation unbekannter Erkrankungsallele oder Erkrankungsgene kann zudem Erkenntnisse bringen, die ein gänzlich neues Verständnis der Pathomechanismen ermöglichen. Durch umfassende genetische Untersuchungen besteht die Möglichkeit, die ungelöste genetische Basis der Rekurrenz der FSGS-Erkrankung bei bislang Varianten-negativen Patienten zu finden.
Association of fecal occult blood tests results with colonoscopic findings in a general hospital and validation of the screening test
Authors: Saraceni Ana Flávia , Azevedo Rodrigo , Almeida Clarissa Maria Gomes , Baraviera Antônio Carlos , Kiss Desiderio Roberto , Almeida Maristela Gomes 
Published: November 2018

AbstractGlobally, colorectal cancer is the third leading cause of cancer death among men and the second among women, corresponding to about 10% of all cancers. The Brazilian Ministry of Health and National Cancer Institute recommend the screening of colorectal cancer for people over 50 years-old with Fecal Occult Blood Test. Endoscopy is limited to patients with positive screening results. The aim of this study is to evaluate the incidence of malignant or premalignant lesions diagnosed by endoscopy in patients with positive or negative Fecal Occult Blood Test and assess the efficacy of Fecal Occult Blood Test to predict the finding of a malignant colorectal lesion. We carried out a cross-sectional study among patients with a Fecal Occult Blood Test result that were submitted to colonoscopy, in the same hospital, from March 2016 to July 2017. Sensitivity, specificity, positive and negative predictive value of Fecal Occult Blood Test compared to colonoscopy neoplastic findings was calculated. The total of 92 patients were enrolled, 52 (56.5%) were female, Fecal Occult Blood Test was positive in 42.4% of them and in 41 (44.6%) the colonoscopy showed abnormal findings. Polyps were the most frequent alteration, found in 20 patients (21.7%). Among the patients with polyps, 15 (16.3%) had neoplastic and 5 (5.4%) presented non-neoplastic polyps. The Fecal Occult Blood Test sensitivity for detection of neoplastic polyps was 66.7%, specificity 62.3%, positive predictive value 11% and negative predictive value was 94.2%. Considering the need for a screening method, Fecal Occult Blood Test showed to be an effective and reliable screening test that can be applied in public health programs to detect and prevent colorectal cancer.
Moral Diversity and Moral Responsibility
Authors: KOGELMANN BRIAN , WALLACE ROBERT H. 
Published: November 2018

AbstractIn large, impersonal moral orders many of us wish to maintain good will toward our fellow citizens only if we are reasonably sure they will maintain good will toward us. The mutual maintaining of good will, then, requires that we somehow communicate our intentions to one another. But how do we actually do this? The current paper argues that when we engage in moral responsibility practices—that is, when we express our reactive attitudes by blaming, praising, and resenting—we communicate a desire to maintain good will to those in the community we are imbedded in. Participating in such practices alone will not get the job done, though, for expressions of our reactive attitudes are often what economists call cheap talk. But when we praise and blame in cases of moral diversity, expressions of our reactive attitudes act as costly signals capable of solving our social dilemma.
Design and experimental demonstration of a high conversion efficiency OPCPA pre-amplifier for petawatt laser facility
Authors: Liang Xiao , Xie Xinglong , Kang Jun , Yang Qingwei , Wei Hui , Sun Meizhi , Zhu Jianqiang 
Published: November 2018

We present the design and experiment of a broadband optical parametric chirped-pulse amplifier (OPCPA) which provides high conversion efficiency and good beam quality at 808 nm wavelength. Using a three-dimensional spatial and temporal numerical model, several design considerations necessary to achieve high conversion efficiency, good beam quality and good output stability are discussed. To improve the conversion efficiency and broaden the amplified signal bandwidth simultaneously, the nonlinear crystal length and OPCPA parameters are analyzed and optimized with the concept of dissipating amplified idler between optical parametric amplification (OPA) of two crystals configuration. In the experiment, an amplifier consisting of two OPCPA stages of ‘L’ type configuration was demonstrated by using the optimized parameters. An amplified signal energy of 160 mJ was achieved with a total pump-to-signal efficiency of 35% (43% efficiency for the OPCPA stage 2). The output bandwidth of signal pulse reached 80 nm and the signal pulse was compressed to 24 fs. The energy stability reached 1.67% RMS at 3% pump energy variation. The optimized OPCPA amplifier operates at a repetition rate of 1 Hz and is used as a front-end injection for the main amplifier of SG-II 5PW laser facility.
No improvement in depressive symptoms by vitamin D supplementation: results from a randomised controlled trial
Authors: Jorde Rolf , Kubiak Julia 
Published: November 2018

AbstractIn observational studies, vitamin D deficiency is associated with depressive symptoms. However, randomised controlled trials (RCT) with vitamin D supplementation have not been conclusive. In the present study 206 subjects were randomised to vitamin D (100 000 IU (2500 µg) as a bolus dose followed by 20 000 IU (500 µg) per week) and 202 to placebo. The Beck Depression Inventory-II (BDI-II) was filled in at baseline and after 4 months at the end of the study. At baseline the mean age was 51·4 and 52·5 years and mean serum 25-hydroxyvitamin D (25(OH)D) 32·5 and 35·1 nmol/l in the vitamin D and placebo groups, respectively. Among the 408 subjects, 193 had a BDI-II score >4, and forty-five had a score >13. Twenty-three subjects were using anti-depressant or mood-stabilising drugs. At the end of the study, there were no significant differences in Δ BDI-II score (score at the end of the study minus score at baseline), regardless of analysing all subjects, subjects with or without psycopharmaca, or if performing subgroup analyses based on baseline and final serum 25(OH)D levels combined with categories of baseline BDI-II scores >4 or >13. In conclusion, we have not been able to demonstrate any significant effect of vitamin D supplementation on depressive symptoms. However, few of our subjects were clinically depressed. Future RCT should include subjects with more severe vitamin D deficiency as well as more depressed subjects than in our study. In such a setting vitamin D may probably be more relevant as an augmenter of standard antidepressant medication/treatment.
The Phase II Murchison Widefield Array: Design overview
Authors: Wayth Randall B. , Tingay Steven J. , Trott Cathryn M. , Emrich David , Johnston-Hollitt Melanie , McKinley Ben , Gaensler B. M. , Beardsley A. P. , Booler T. , Crosse B. , Franzen T. M. O. , Horsley L. , Kaplan D. L. , Kenney D. , Morales M. F. , Pallot D. , Sleap G. , Steele K. , Walker M. , Williams A. , Wu C. , Cairns Iver. H. , Filipovic M. D. , Johnston S. , Murphy T. , Quinn P. , Staveley-Smith L. , Webster R. , Wyithe J. S. B. 
Published: November 2018

AbstractWe describe the motivation and design details of the ‘Phase II’ upgrade of the Murchison Widefield Array radio telescope. The expansion doubles to 256 the number of antenna tiles deployed in the array. The new antenna tiles enhance the capabilities of the Murchison Widefield Array in several key science areas. Seventy-two of the new tiles are deployed in a regular configuration near the existing array core. These new tiles enhance the surface brightness sensitivity of the array and will improve the ability of the Murchison Widefield Array to estimate the slope of the Epoch of Reionisation power spectrum by a factor of ∼3.5. The remaining 56 tiles are deployed on long baselines, doubling the maximum baseline of the array and improving the arrayu, vcoverage. The improved imaging capabilities will provide an order of magnitude improvement in the noise floor of Murchison Widefield Array continuum images. The upgrade retains all of the features that have underpinned the Murchison Widefield Array’s success (large field of view, snapshot image quality, and pointing agility) and boosts the scientific potential with enhanced imaging capabilities and by enabling new calibration strategies.
The impact of a multilevel childhood obesity prevention intervention on healthful food acquisition, preparation, and fruit and vegetable consumption on African-American adult caregivers
Authors: Trude Angela CB , Surkan Pamela J , Anderson Steeves Elizabeth , Pollack Porter Keshia , Gittelsohn Joel 
Published: November 2018

AbstractObjectiveTo evaluate the secondary impact of a multilevel, child-focused, obesity intervention on food-related behaviours (acquisition, preparation, fruit and vegetable (FV) consumption) on youths’ primary caregivers.DesignB’More Healthy Communities for Kids (BHCK) group-randomized controlled trial promoted access to healthy foods and food-related behaviours through wholesaler and small store strategies, peer mentor-led nutrition education aimed at youths, and social media and text messaging targeting their adult caregivers. Measures included caregivers’ (n516) self-reported household food acquisition frequency for FV, snacks and grocery items over 30 d, and usual FV consumption in a sub-sample of 226 caregivers via the NCI FV Screener. Hierarchical models assessed average treatment effects (ATE). Treatment-on-the-treated-effect (TTE) analyses evaluated correlation between behavioural change and exposure to BHCK. Exposure scores at post-assessment were based on self-reported viewing of BHCK materials and participating in activities.SettingThirty Baltimore City low-income neighbourhoods, USA.ParticipantsAdult caregivers of youths aged 9–15 years.ResultsOf caregivers, 90·89 % were female; mean age 39·31 (sd9·31) years. Baseline mean (sd) intake (servings/d) was 1·30 (1·69) fruits and 1·35 (1·05) vegetables. In ATE, no significant intervention effect was found on caregivers’ food-related behaviours. In TTE, each point increase in BHCK exposure score (range: 0–6·9) increased caregivers’ daily fruit consumption by 0·2 servings (0·24 (se0·11); 95 % CI 0·04, 0·47). Caregivers reporting greater social media exposure tripled their daily fruit intake (3·16 (se0·92); 95 % CI 1·33, 4·99) and increased their frequency of unhealthy food purchasingv. baseline.ConclusionsChild-focused community-based nutrition interventions may also benefit family members’ fruit intake. Child-focused interventions should involve adult caregivers and intervention effects on family members should be assessed. Future multilevel studies should consider using social media to improve reach and engage caregiver participants.
A dosimetric analysis of proton beam therapy using different snouts
Authors: Iqbal Khalid , Shamsi Qurat-ul-ain , Gifford Kent A , Anum Sania , Buzdar Saeed Ahmad 
Published: November 2018

AbstractPurposeThis exploration is intended to analyse the dosimetric characteristics of proton beams of multiple energies using different snout sizes.Materials and methodsA synchrotron was used for the extraction of eight proton beam energies (100–250 MeV). Dosimetric measurements were taken in a water phantom that was irradiated with a proton beam emanating from the gantry system at angles 0, 90, 180 and 270 degree using a large and a medium snout. The range of beam energies in the phantom, their corresponding centre modulation depth (CMD) and the width of spread out Bragg peak (SOBP) were measured by Markus chamber. Double scattering technique was employed for the creation of SOBPs.ResultsThe range of proton beams varied from 4·3 cm for 100 MeV beam to 28·5 cm for 250 MeV beam with the medium snout and from 4·3 cm for 100 MeV to 25 cm for 250 MeV beam with large snout in the water phantom. SOBP width showed a variation from 4 to 10 cm with medium and large snout. While determining the output with medium snout, the discrepancy of 1·1% was observed between the maximum and minimum mean values of output for all the given set of energies and angles. There occurred a difference of 0·9% between the maximum and minimum mean values of output with the large snout. Beam output at SOBP centre was 12% higher with large snout as compared to that with medium snout for all the given beam energies. Flatness and symmetry were found within ±2·5% tolerance limits with medium and large snouts.ConclusionFlatness and symmetry were found within explicit limits with both medium and large snouts. Large snout produced higher beam output than that of medium snout at the centre of SOBP. This exploration can be extended to the determination of beam output, flatness and symmetry with a small snout.
Characterization of microsatellite markers for Narcissus dubius, N. cuatrecasasii, N. assoanus and N. rupicola (Amaryllidaceae)
Authors: Barranco Daniel , Simón-Porcar Violeta I. , Arroyo Juan 
Published: November 2018

AbstractThe genusNarcissusL. (Amaryllidaceae) provides a model system to study the evolution and maintenance of sexual polymorphisms. In this study, we characterized microsatellite markers forN. dubius,N. cuatrecasasii,N. assoanusandN. rupicolafor studies of genetic diversity and paternity analyses to investigate the stability of stylar dimorphism. We proved 40 new primer pairs from a genomic library ofN. papyraceusand 12 microsatellite markers characterized also forN. papyraceusin a previous study (52 primer pairs overall). Twenty markers amplified, but their transferability and variability were different among species. Polymorphism was tested at least on 74 individuals and one population per species. The number of polymorphic loci per species ranged from four to eight. The number of alleles per locus ranged from two to 19 and the observed heterozygosity and gene diversity, from 0.107 to 0.729 and 0.103 to 0.894, respectively. These markers can be used for studies of genetic diversity and paternity analyses among individuals ofN. dubius,N. cuatrecasasii,N. assoanusandN. rupicolato study the stability of stylar dimorphism.
Factor Structure of the Gratitude Questionnaire in a Spanish Sample
Authors: Magallares Alejandro , Recio Patricia , Sanjuán Pilar 
Published: November 2018

AbstractThe Gratitude Questionnaire is a short, self-report measure of the disposition to experience gratitude. The Gratitude Questionnaire has been validated in several countries but its factor structure remains controversial. Therefore, the main goal of the study was to examine the factor structure of the Gratitude Questionnaire in a Spanish sample. Two samples were recruited (957 and 920 participants). The confirmatory factor analyses showed that the best fit was the five-item model with errors of item four and five correlated (CFI = .99, NFI = .99, RMSEA = .02). This model demonstrated partial cross-validity based on an analysis of factorial invariance. The Composite Reliability of the five-item Gratitude Questionnaire was .81. In addition, it was found that gratitude was positively related to subjective and psychological well-being. Specifically, the Gratitude Questionnaire was positively correlated to life satisfaction (r= .56,p< .01), affect balance (r= .46,p< .01), self-acceptance (r= .54,p< .01), positive relations (r= .44,p< .01), autonomy (r= .17,p< .01), environmental mastery (r= .49,p< .01), personal growth (r= .36,p< .01), and purpose in life (r= .50,p< .01). According to the results, it can be concluded that the Spanish version of the five-item Gratitude Questionnaire possessed better psychometric properties than the original six-item model.
A New Approach to Quantify Herbicide Volatility
Authors: Ouse David G. , Gifford James M. , Schleier Jerome , Simpson David D. , Tank Holger H. , Jennings Curtiss J. , Annangudi Suresh P. , Valverde-Garcia Pablo , Masters Robert A. 
Published: November 2018

AbstractHerbicide active ingredients, formulation type, ambient temperature, and humidity can influence volatility. A method was developed using volatility chambers to compare relative volatility of different synthetic auxin herbicide formulations in controlled environments. 2,4-D or dicamba acid vapors emanating after application were captured in air-sampling tubes at 24, 48, 72, and 96 h after herbicide application. The 2,4-D or dicamba was extracted from sample tubes and quantified using liquid chromatography and tandem mass spectrometry. Volatility from 2,4-D dimethylamine (DMA) was determined to be greater than that of 2,4-D choline in chambers where temperatures were held at 30 or 40 C and relative humidity (RH) was 20% or 50%. Air concentration of 2,4-D DMA was 0.399 µg m−3at 40 C and 20% RH compared with 0.005 µg m−3for 2,4-D choline at the same temperature and humidity at 24 h after application. Volatility from 2,4-D DMA and 2,4-D choline increased as temperature increased from 30 to 40 C. However, volatility from 2,4-D choline was lower than observed from 2,4-D DMA. Volatility from 2,4-D choline at 40 C increased from 0.00458 to 0.0263 µg m−3and from 0.00341 to 0.025 µg m−3when humidity increased from 20% to 50% at 72 and 96 h after treatment, respectively, whereas, volatility from 2,4-D DMA tended to be higher at 20% RH compared with 50% RH. Air concentration of dicamba diglycolamine was similar at all time points when measured at 40 C and 20% RH. By 96 h after treatment, there was a trend for lower air concentration of dicamba compared with earlier timings. This method using volatility chambers provided good repeatability with low variability across replications, experiments, and herbicides.
Multimodal Layered Transdimensional Inversion of Seismic Dispersion Curves With Depth Constraints
Authors: Killingbeck S. F. , Livermore P. W. , Booth A. D. , West L. J. 
Published: November 2018

AbstractMuLTI (Multimodal Layered Transdimensional Inversion) is a Markov chain Monte Carlo implementation of Bayesian inversion for the probability distribution of shear wave velocity (Vs) as a function of depth. Based on Multichannel Analysis of Surface Wave methods, it requires as data (i) a Rayleigh‐wave dispersion curve and (ii) additional layer depth constraints, the latter we show significantly improve resolution compared to conventional unconstrained inversions. Such depth constraints may be drawn from any source (e.g., boreholes, complementary geophysical data) provided they also represent a seismic interface. We apply MuLTI to a Norwegian glacier, Midtdalsbreen, in which ground‐penetrating radar was used to constrain internal layers of snow, ice, and subglacial sediments, with transitions at 2 and 25.5 m, and whose Vs is assumed to be in the range 500–1,700, 1,700–1,950, and 200–2,800 m/s, respectively. Synthetic modeling demonstrates that MuLTI recovers the true model of Vs variation with depth. Significantly, compared to inversions without depth constraints, in this synthetic case MuLTI not only reduces by about a factor of 10 the error between the true and the best fitting model, but also reduces by a factor of 2 the vertically averaged spread of the distribution of Vs based on the 95% credible intervals. We further show that using frequencies above about 100 Hz lead to unconverged solutions due to mode ambiguities associated with fine spatial structures. For our acquired data on Midtdalsbreen, we use 14‐100 Hz data for which MuLTI produces a large‐scale converged inversion.