bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fast MS/MS acquisition without dynamic exclusion enables precise and accurate quantification of proteome by MS/MS fragment intensity
Authors: Zhang Shen , Wu Qi , Shan Yichu , Zhao Qun , Zhao Baofeng , Weng Yejing , Sui Zhigang , Zhang Lihua , Zhang Yukui 
Published: May 2016

AbstractMost currently proteomic studies use data-dependent acquisition with dynamic exclusion to identify and quantify the peptides generated by the digestion of biological sample. Although dynamic exclusion permits more identifications and higher possibility to find low abundant proteins, stochastic and irreproducible precursor ion selection caused by dynamic exclusion limit the quantification capabilities, especially for MS/MS based quantification. This is because a peptide is usually triggered for fragmentation only once due to dynamic exclusion. Therefore the fragment ions used for quantification only reflect the peptide abundances at that given time point. Here, we propose a strategy of fast MS/MS acquisition without dynamic exclusion to enable precise and accurate quantification of proteome by MS/MS fragment intensity. The results showed comparable proteome identification efficiency compared to the traditional data-dependent acquisition with dynamic exclusion, better quantitative accuracy and reproducibility regardless of label-free based quantification or isobaric labeling based quantification. It provides us with new insights to fully explore the potential of modern mass spectrometers. This strategy was applied to the relative quantification of two human disease cell lines, showing great promises for quantitative proteomic applications.
Difference in Visual Social Predispositions Between Newborns at Low- and High-risk for Autism
Authors: Di Giorgio Elisa , Frasnelli Elisa , Rosa Salva Orsola , Luisa Scattoni Maria , Puopolo Maria , Tosoni Daniela ,   NIDA-Network, Apicella Fabio , Gagliano Antonella , Guzzetta Andrea , Molteni Massimo , Persico Antonio , Pioggia Giovanni , Valeri Giovanni , Vicari Stefano , Simion Francesca , Vallortigara Giorgio 
Published: May 2016

AbstractSome key behavioural traits of Autism Spectrum Disorders (ASD) have been hypothesized to be due to impairments in the early activation of subcortical orienting mechanisms, which in typical development bias newborns to orient to relevant social visual stimuli. A challenge to testing this hypothesis is that autism is usually not diagnosed until a child is at least 3 years old. Here, we circumvented this difficulty by studying for the very first time, the predispositions to pay attention to social stimuli in newborns with a high familial risk of autism. Results showed that visual preferences to social stimuli strikingly differed between high-risk and low-risk newborns. Significant predictors for high-risk newborns were obtained and an accurate biomarker was identified. The results revealed early behavioural characteristics of newborns with familial risk for ASD, allowing for a prospective approach to the emergence of autism in early infancy.
High-resolution Imaging of pH in Alkaline Sediments and Water Based on a New Rapid Response Fluorescent Planar Optode
Authors: Han Chao , Yao Lei , Xu Di , Xie Xianchuan , Zhang Chaosheng 
Published: May 2016

AbstractA new dual-lumophore optical sensor combined with a robust RGB referencing method was developed for two-dimensional (2D) pH imaging in alkaline sediments and water. The pH sensor film consisted of a proton-permeable polymer (PVC) in which two dyes with different pH sensitivities and emission colors: (1) chloro phenyl imino propenyl aniline (CPIPA) and (2) the coumarin dye Macrolex® fluorescence yellow 10 GN (MFY-10 GN) were entrapped. Calibration experiments revealed the typical sigmoid function and temperature dependencies. This sensor featured high sensitivity and fast response over the alkaline working ranges from pH 7.5 to pH 10.5. Cross-sensitivity towards ionic strength (IS) was found to be negligible for freshwater when IS <0.1 M. The sensor had a spatial resolution of approximately 22 μm and aresponse time of <120 s when going from pH 7.0 to 9.0. The feasibility of the sensor was demonstrated using the pH microelectrode. An example of pH image obtained in the natrual freshwater sediment and water associated with the photosynthesis of Vallisneria spiral species was also presented, suggesting that the sensor held great promise for the field applications.
Effect of Exercise and Calorie Restriction on Tissue Acylcarnitines, Tissue Desaturase Indices, and Fat Accumulation in Diet-Induced Obese Rats
Authors: Gopalan Venkatesh , Michael Navin , Ishino Seigo , Lee Swee Shean , Yang Adonsia Yating , Bhanu Prakash K. N. , Yaligar Jadegoud , Sadananthan Suresh Anand , Kaneko Manami , Zhou Zhihong , Satomi Yoshinori , Hirayama Megumi , Kamiguchi Hidenori , Zhu Bin , Horiguchi Takashi , Nishimoto Tomoyuki , Velan S. Sendhil 
Published: May 2016

AbstractBoth exercise and calorie restriction interventions have been recommended for inducing weight-loss in obese states. However, there is conflicting evidence on their relative benefits for metabolic health and insulin sensitivity. This study seeks to evaluate the differential effects of the two interventions on fat mobilization, fat metabolism, and insulin sensitivity in diet-induced obese animal models. After 4 months ofad libitumhigh fat diet feeding, 35 male Fischer F344 rats were grouped (n = 7 per cohort) into sedentary control (CON), exercise once a day (EX1), exercise twice a day (EX2), 15% calorie restriction (CR1) and 30% calorie restriction (CR2) cohorts. Interventions were carried out over a 4-week period. We found elevated hepatic and muscle long chain acylcarnitines with both exercise and calorie restriction, and a positive association between hepatic long chain acylcarnitines and insulin sensitivity in the pooled cohort. Our result suggests that long chain acylcarnitines may not indicate incomplete fat oxidation in weight loss interventions. Calorie restriction was found to be more effective than exercise in reducing body weight. Exercise, on the other hand, was more effective in reducing adipose depots and muscle triglycerides, favorably altering muscle/liver desaturase activity and improving insulin sensitivity.
Compression loading-induced stress responses in intervertebral disc cells encapsulated in 3D collagen constructs
Authors: Chooi Wai Hon , Chan Barbara Pui 
Published: May 2016

AbstractCells protect themselves from stresses through a cellular stress response. In the interverebral disc, such response was also demonstrated to be induced by various environmental stresses. However, whether compression loading will cause cellular stress response in the nucleus pulposus cells (NPCs) is not well studied. By using an in vitro collagen microencapsulation model, we investigated the effect of compression loading on the stress response of NPCs. Cell viability tests and gene and protein expression experiments were conducted, with primers for the heat shock response (HSR: HSP70, HSF1, HSP27 and HSP90) and unfolded protein response (UPR: GRP78, GRP94, ATF4 and CHOP) genes and an antibody to HSP72. Different gene expression patterns occurred due to loading type throughout experiments. Increasing the loading strain for a short duration did not increase the stress response genes significantly, but over longer durations, HSP70 and HSP27 were upregulated. Longer loading durations also resulted in a continuous upregulation of HSR genes and downregulation of UPR genes, even after load removal. The rate of apoptosis did not increase significantly after loading, suggesting that stress response genes might play a role in cell survival following mechanical stress. These results demonstrate how mechanical stress might induce and control the expression of HSR and UPR genes in NPCs.
Glycosyltransferase Gene Expression Profiles Classify Cancer Types and Propose Prognostic Subtypes
Authors: Ashkani Jahanshah , Naidoo Kevin J. 
Published: May 2016

AbstractAberrant glycosylation in tumours stem from altered glycosyltransferase (GT) gene expression but can the expression profiles of these signature genes be used to classify cancer types and lead to cancer subtype discovery? The differential structural changes to cellular glycan structures are predominantly regulated by the expression patterns of GT genes and are a hallmark of neoplastic cell metamorphoses. We found that the expression of 210 GT genes taken from 1893 cancer patient samples in The Cancer Genome Atlas (TCGA) microarray data are able to classify six cancers; breast, ovarian, glioblastoma, kidney, colon and lung. The GT gene expression profiles are used to develop cancer classifiers and propose subtypes. The subclassification of breast cancer solid tumour samples illustrates the discovery of subgroups from GT genes that match well against basal-like and HER2-enriched subtypes and correlates to clinical, mutation and survival data. This cancer type glycosyltransferase gene signature finding provides foundational evidence for the centrality of glycosylation in cancer.
Curcumin: A multi-target disease-modifying agent for late-stage transthyretin amyloidosis
Authors: Ferreira Nelson , Gonçalves Nádia P. , Saraiva Maria J. , Almeida Maria R. 
Published: May 2016

AbstractTransthyretin amyloidoses encompass a variety of acquired and hereditary diseases triggered by systemic extracellular accumulation of toxic transthyretin aggregates and fibrils, particularly in the peripheral nervous system. Since transthyretin amyloidoses are typically complex progressive disorders, therapeutic approaches aiming multiple molecular targets simultaneously, might improve therapy efficacy and treatment outcome. In this study, we evaluate the protective effect of physiologically achievable doses of curcumin on the cytotoxicity induced by transthyretin oligomers in vitro by showing reduction of caspase-3 activity and the levels of endoplasmic reticulum-resident chaperone binding immunoglobulin protein. When given to an aged Familial Amyloidotic Polyneuropathy mouse model, curcumin not only reduced transthyretin aggregates deposition and toxicity in both gastrointestinal tract and dorsal root ganglia but also remodeled congophilic amyloid material in tissues. In addition, curcumin enhanced internalization, intracellular transport and degradation of transthyretin oligomers by primary macrophages from aged Familial Amyloidotic Polyneuropathy transgenic mice, suggesting an impaired activation of naïve phagocytic cells exposed to transthyretin toxic intermediate species. Overall, our results clearly support curcumin or optimized derivatives as promising multi-target disease-modifying agent for late-stage transthyretin amyloidosis.
Ownership relevance in aspect-oriented business process models
Authors: Leite Julio Cesar Sampaio do Prado , Santoro Flavia Maria , Cappelli Claudia , Batista Thais Vasconcelos , Santos Fabiana Jack Nogueira 
Published: May 2016

Purpose
– The purpose of this paper is to propose a representation scheme based on the i* strategic actor model to represent the process owner information and show how to incorporate this approach into the event driven process chain and Business Process Modeling Notation-BPMN meta-models and also into the aspect-oriented business process modeling (BPM) context.

Design/methodology/approach
– The authors use a case study in a real setting to evaluate the proposal and a controlled experiment to get more evidence about its relevance.

Findings
– The authors presented evidence both from a case study in a real-world library showing the importance of representing – previously unavailable – process owner information, and from an experiment which involved participants analyzing the same models of the case study, confirming the preliminary evidences. It is important to stress the recognition that the proposed representation provided more transparency, in terms of ownership, than the usual BPM models. These benefits are due to the combination of the aspect-oriented approach and the strategic actor model, providing ownership information in a more transparent way.

Originality/value
– The authors not only argue the importance of clearly established process ownership, both of the core process and the aspectual process, but also the authors presented an approach to represent the actor involved in process and aspect ownership as an instantiation of the i* strategic actor. Using this approach, the process owner can be defined in terms of actors instead of the activities performed. It is also possible to define the aspect owner and to include the aspectual process concept in the business process model.
From local IT needs to global process transformation: Hilti’s customer service program
Authors: vom Brocke Jan , Schmiedel Theresa , Simons Alexander , Schmid Alexander M. , Petry Martin , Baeck Christoph 
Published: May 2016

Purpose
– The purpose of this paper is to summarize an information technology (IT) initiative at Hilti Corporation that began with a local IT need and ended with the global transformation of the company’s customer service processes and infrastructures. The authors highlight 12 lessons learned from the transformation, which Hilti referred to as the Global Contact Center (GCC) program.

Design/methodology/approach
– The authors analyze Hilti’s GCC program based on first-hand experience. Hilti applied an innovative, wave-like implementation approach that facilitated a fast roll-out, fostered peer-to-peer knowledge transfer, and helped to overcome reluctance to change.

Findings
– The analysis of Hilti’s approach to its new customer service management reveals a number of simple, yet, critical lessons learned regarding leveraging IT-driven business value through global process transformation.

Research limitations/implications
– The case report can help researchers to further theorize about IT-enabled process transformation. The GCC program resulted in significant improvements in the performance and quality of customer service processes and enabled transparent reporting and performance measurement on a global scale.

Practical implications
– Overall, the GCC case provides an illustrative example of successful process transformation at the global level that also demonstrates implementation challenges. As such, the case report can help practitioners in planning and executing similar projects toward customer service excellence.

Originality/value
– Hilti’s GCC case not only provides fresh insights into a successful process transformation. As it focusses on customer service, it also concerns an application area that has received little in the way of attention from process transformation research.
Turbulence models assessment for separated flows in a rectangular asymmetric three-dimensional diffuser
Authors: Lu Lipeng , Zhong Luyang , Liu Yangwei 
Published: May 2016

Purpose
– The purpose of this paper is to present a full three-dimensional (3D) computational fluid dynamics (CFD) analysis of a rectangular asymmetric 3D diffuser utilizing seven turbulence models frequently used in engineering to assess the predictive capabilities of the turbulence models for separated flows in internal flows.

Design/methodology/approach
– The structured computational grids are generated by means of the mesh generation tool IGG software package. The computational grids are imported into the commercial CFD code Fluent. The performance of the different turbulence models adopted has been systematically assessed by comparing the numerical results with the available experimental and direct numerical simulation/large eddy simulations data.

Findings
– The comparisons show that the Reynolds stress model (RSM) evidently performs better than the other turbulence models for predicting wall pressure, velocity, and vorticity fields. Moreover, only the RSM can predict the separation bubble region around the top right corner, which is consistent with the experiment. It is found that the RSM can well predict Prandtl’s secondary flow of the second kind for considering turbulence anisotropy, whereas the other models cannot.

Originality/value
– The paper utilizes seven turbulence models frequently used in engineering in detailed numerical investigations of a real 3D diffuser to expand the scope of application for various turbulence models. The studies are valuable for the proper use of the turbulence models, allowing the designers to understand the numerical results further and contributing to the modification of the turbulence models for 3D flows.
Forming limit prediction for two-stage aluminum alloy sheet forming process considering the effect of normal stress
Authors: Zhang Feifei , Chen Jieshi , Chen Jun 
Published: May 2016

Purpose
– The purpose of this paper is to analyze theoretically the influence of normal stress on the formability of aluminum alloy sheets in non-linear strain paths.

Design/methodology/approach
– Four loading modes of non-linear strain paths are investigated in detail to consider the effect of normal stress on formability of aluminum alloy sheets.

Findings
– Results show that the influence of normal stress in the first stage can be ignored. However, the normal stress in the second stage enhances the formability of aluminum alloy sheets obviously. Besides, the normal stress in the second stage is found to have larger effect on forming limit stress than that in the first stage.

Research limitations/implications
– Maybe more experiment data should be obtained to support the theoretical findings.

Originality/value
– This current study provides a better understanding of normal stress effect on the formability of aluminum alloy sheets in non-linear strain paths. Since the reacting stage of normal stress play important roles in normal stress effect on the formability of aluminum alloy sheets, the insight obtained in this paper will help to judge the instability of aluminum alloy sheets in complex forming processes with normal stress reacting on the sheet or tube.
Thermomechanical modeling of fiber reinforced material including interphasial properties and its application to epoxy/glass composites
Authors: Bozic Marko , Fleischhauer Robert , Kaliske Michael 
Published: May 2016

Purpose
– The purpose of this paper is to investigate of interphasial effects, including temperature dependency, within fiber reinforced polymers on the overall composite behavior. Providing theoretical and numerical approaches in terms of a consistent thermomechanical finite element method framework are further goals of this research.

Design/methodology/approach
– Starting points for achieving the aims of this research are the partial differential equations describing the evolution of the displacements and temperature within a continuum mechanical setting. Based on the continuous formulation of a thermomechanical equilibrium, constitutive equations are derived, accounting for the modeling of fiber reinforced thermosets and thermoplastics, respectively. The numerical solutions of different initial boundary value problems are obtained by a consistent implementation of the proposed formulations into a finite element framework.

Findings
– The successful theoretical formulation and numerical modeling of the thermoinelastic matrix materials as well as the thermomechanical treatment of the composite interphase (IP) are demonstrated for an epoxy/glass system. The influence of the IP on the overall composite behavior is successfully investigated and concluded as a further aspect.

Originality/value
– A thermomechanical material model, suitable for finite thermoinelasticity of thermosets and thermoplastics is introduced and implemented into a novel kinematic framework in context of the inelastic deformation evolution. The gradually changing material properties between the matrix and the fiber of a composite are continuously formulated and numerically processed, in order to achieve an efficient and realistic approach to model fiber reinforced composites.
Inverse surrogate modeling for low-cost geometry scaling of microwave and antenna structures
Authors: Koziel Slawomir , Bekasiewicz Adrian 
Published: May 2016

Purpose
– The purpose of this paper is to investigate strategies for expedited dimension scaling of electromagnetic (EM)-simulated microwave and antenna structures, exploiting the concept of variable-fidelity inverse surrogate modeling.

Design/methodology/approach
– A fast inverse surrogate modeling technique is described for dimension scaling of microwave and antenna structures. The model is established using reference designs obtained for cheap underlying low-fidelity model and corrected to allow structure scaling at high accuracy level. Numerical and experimental case studies are provided demonstrating feasibility of the proposed approach.

Findings
– It is possible, by appropriate combination of surrogate modeling techniques, to establish an inverse model for explicit determination of geometry dimensions of the structure at hand so as to re-design it for various operating frequencies. The scaling process can be concluded at a low computational cost corresponding to just a few evaluations of the high-fidelity computational model of the structure.

Research limitations/implications
– The present study is a step toward development of procedures for rapid dimension scaling of microwave and antenna structures at high-fidelity EM-simulation accuracy.

Originality/value
– The proposed modeling framework proved useful for fast geometry scaling of microwave and antenna structures, which is very laborious when using conventional methods. To the authors’ knowledge, this is one of the first attempts to surrogate-assisted dimension scaling of microwave components at the EM-simulation level.
Low-cost multi-objective optimization and experimental validation of UWB MIMO antenna
Authors: Koziel Slawomir , Bekasiewicz Adrian 
Published: May 2016

Purpose– The purpose of this paper is to validate methodologies for expedited multi-objective design optimization of complex antenna structures both numerically and experimentally.Design/methodology/approach– The task of identifying the best possible trade-offs between the antenna size and its electrical performance is formulated as multi-objective optimization problem. Algorithmic frameworks are described for finding Pareto-optimal designs using auxiliary surrogate models and two alternative approaches to design refinement: response correction techniques and co-kriging. Numerical and experimental case studies are provided to demonstrate feasibility of solving real-world and complex antenna design tasks.Findings– It is possible, through appropriate combination of the surrogate modeling techniques (both data driven and physics based) and response correction methods, to find the set of alternative designs representing the best possible trade-offs between conflicting design objectives, here, electrical performance and size. Design optimization can be performed at practically feasible computational costs.Research limitations/implications– The study demonstrates feasibility of automated multi-objective design optimization of antennas at low computational cost. The presented techniques reach beyond the commonly used design approaches based on parameter sweeps and similar hands-on methods, particularly in terms of automation, reliability and reduction of the computational costs of the design processes.Originality/value– Multi-objective design of antenna structures is very challenging when high-fidelity electromagnetic simulations are utilized for performance evaluation of the structure at hand. The proposed design framework permits rapid optimization of complex structures (here, MIMO antenna), which is hardly possible using conventional methods.