bluuebunny/crossref_metadata_2025_split huggingface dataset:
The landscape of actionable genomic alterations in cell-free circulating tumor DNA from 21,807 advanced cancer patients
Authors: Zill Oliver A. , Banks Kimberly C. , Fairclough Stephen R. , Mortimer Stefanie A. , Vowles James V. , Mokhtari Reza , Gandara David R. , Mack Philip C. , Odegaard Justin I. , Nagy Rebecca J. , Baca Arthur M. , Eltoukhy Helmy , Chudova Darya I. , Lanman Richard B. , Talasaz AmirAli 
Published: December 2017

AbstractCell-free DNA (cfDNA) sequencing provides a non-invasive method for obtaining actionable genomic information to guide personalized cancer treatment, but the presence of multiple alterations in circulation related to treatment and tumor heterogeneity pose analytical challenges. We present the somatic mutation landscape of 70 cancer genes from cfDNA deep-sequencing analysis of 21,807 patients with treated, late-stage cancers across >50 cancer types. Patterns and prevalence of cfDNA alterations in major driver genes for non-small cell lung, breast, and colorectal cancer largely recapitulated those from tumor tissue sequencing compendia (TCGA and COSMIC), with the principle differences in alteration prevalence being due to patient treatment. This highly sensitive cfDNA sequencing assay revealed numerous subclonal tumor-derived alterations, expected as a result of clonal evolution, but leading to an apparent departure from mutual exclusivity in treatment-naïve tumors. To facilitate interpretation of this added complexity, we developed methods to identify cfDNA copy-number driver alterations and cfDNA clonality. Upon applying these methods, robust mutual exclusivity was observed among predicted truncal driver cfDNA alterations, in effect distinguishing tumor-initiating alterations from secondary alterations. Treatment-associated resistance, including both novel alterations and parallel evolution, was common in the cfDNA cohort and was enriched in patients with targetable driver alterations. Together these retrospective analyses of a large set of cfDNA deep-sequencing data reveal subclonal structures and emerging resistance in advanced solid tumors.
Islamic symbols in food packaging and purchase intention of Muslim consumers
Authors: Akbari Mohsen , Gholizadeh Mohammad Hasan , Zomorrodi Masoomeh 
Published: December 2017

PurposePurchase intention of consumers depends on their perception of the extent to which his expectations will be met through the product. This issue, in the context of the products that are immediately purchased by consumer, depends on the extent of relationship in the point of sale. Packaging is one of the most significant factors influencing purchase decision in the point of sale. In this research, the purpose is evaluating the impact of using Islamic symbols in food packaging on the purchase intention of Muslim consumers.Design/methodology/approachThe authors surveyed Muslim consumers through a questionnaire and analyzed the gathered data through partial least squares (PLS).FindingsThe findings reveal the positive impact of Islamic symbols in food packaging on purchase intention of Muslim consumers. However, this effect was confirmed regarding people with high religiosity. The findings show that religious symbol in packaging increases perceived religious symbolic-value of the product among the customers with high religiosity.Originality/valueFindings of this paper help marketers that are seeking to promote their products in Islamic markets identify the importance of religious symbols and understand when and how to use these symbols in packaging.
Analysis of a multi-echelon supply chain problem using revised multi-choice goal programming approach
Authors: Kayvanfar Vahid , S. Sajadieh Mohsen , Moattar Husseini S.M. , Karimi Behrooz 
Published: December 2017

Purpose
In this paper, a multi-objective multi-echelon supply-distribution model is proposed to optimize interactions of entities located within an Industrial Cluster (IC) including small- and medium-sized enterprises (SMEs), using a third-party logistics provider (3PL)-managed supply-demand hub in industrial cluster (SDHIC) as a specific public provider of warehousing and logistics services.

Design/methodology/approach
The three considered objectives are minimizing the total logistics costs, maximizing the rate of demand satisfaction and maximizing the quality of delivery. Because some parameters such as “demand of customers” are naturally fuzzy because of incompleteness and/or inaccessibility of the needed information, the triangular fuzzy number is applied for all fuzzy parameters to handle this difficulty. The proposed model is primarily changed into a correspondent supplementary crisp model. To solve such a model, a revised multi-choice goal programming (RMCGP) approach is then used with the purpose of finding a compromise solution.

Findings
Experimental results demonstrate that all enterprises involved in such a supply chain benefit with several advantages using SDHIC by consolidating shipments and merging the storage space of inventories. The applicability of the presented model is shown by conducting these experiments over an applied industrial case study.

Originality/value
The main contributions of this research are proposing a practical mathematical approach to the supply chain of ICs using a specific public warehouse managed by a 3PL, called SDHIC, bridging the existing gaps with respect to the already published researches in this area by applying real-world assumptions such as uncertainty; optimizing the interactions of involved entities in the supply chain of an IC, comprising suppliers, SMEs as manufacturers and customers; minimizing the total incurred logistics costs to such a system through optimum usage of lands, facilities, labors, etc. and boosting the satisfaction of customers through maximizing the service level criteria, illustrating the positive consequences of cooperation of 3PL with the SMEs/manufacturers in an IC, showing the applicability of the adopted approach by implementing it on an applied industrial instance.
Diagnostic criteria, severity classification and guidelines of eosinophilic fasciitis
Authors: Jinnin Masatoshi , Yamamoto Toshiyuki , Asano Yoshihide , Ishikawa Osamu , Sato Shinichi , Takehara Kazuhiko , Hasegawa Minoru , Fujimoto Manabu , Ihn Hironobu 
Published: December 2017

AbstractWe established diagnostic criteria and severity classification of eosinophilic fasciitis because there is no established diagnostic criteria or widely accepted severity classification of the disease. Also, there has been no clinical guideline for eosinophilic fasciitis, so we established its clinical guideline ahead of all over the world. In particular, the clinical guideline was established by clinical questions based on evidence‐based medicine according to the New Minds Clinical Practice Guideline Creation Manual (version 1.0). We aimed to make the guideline easy to use and reliable based on the newest evidence, and to present guidance as specific as possible for various clinical problems in treatment of eosinophilic fasciitis.
Influence of leaf age, irrigation and fertilization on leaf tensile strength of Cynodon dactylon and Zoysia japonica
Authors: Zhang Bing , Shi Jin‐Ang , Guo Hai‐Lin , Zong Jun‐Qin , Liu Jian‐Xiu 
Published: December 2017

AbstractLeaf tensile strength is an important parameter for evaluating leaf mechanical strength, which is closely related to preference of forage grasses and feel quality of turfgrasses. Although the variance of leaf tensile strength in different forage grass species has been extensively studied, similar information concerning the leaf tensile strength in turfgrasses are still deficient. In this study, the leaf tensile strength of eight cultivars and wild accessions of Cynodon dactylon and Zoysia japonica were determined and compared for the first time. The results indicated that leaf tensile strength are highly variable in different C. dactylon and Z. japonica cultivars and wild accessions. Average value of leaf tensile strength of the eight C. dactylon cultivars and wild accessions are much lower than that of the eight Z. japonica cultivars and wild accessions, suggesting Z. japonica are generally tougher than C. dactylon. In an additional experiment, the effects of irrigation and fertilization on leaf tensile strength of C. dactylon cv. Yangjiang and Z. japonica cv. Crowne were also analyzed. The results indicated that less irrigation and excess fertilization treatment both resulted in a significant reduction of leaf tensile strength of the two turfgrass species, suggesting leaf tensile strength of the turfgrasses under investigation may be altered through a combination of different management measures. This information greatly improves our understanding of leaf mechanical strength of turfgrasses.
The rise of the Mosquito Kingdom in Central America's Caribbean borderlands: Sources, questions, and enduring myths
Authors: Mendiola Daniel 
Published: December 2017

AbstractThe Mosquito Kingdom was a confederation of Amerindian‐ and African‐descended people inhabiting the Caribbean coast of Nicaragua and Honduras. This confederation rose to prominence in the late seventeenth century, reaching the height of its power in the 1790s. The descendants of this confederation still inhabit Central America's Mosquito Coast, though today they are more commonly referred to by the ethnic and linguistic moniker Miskitu. This paper presents a historiographical analysis of the Mosquito Kingdom, evaluating the sources and methodologies that scholars have used to study the Mosquito people and their rise to power. Ultimately, this paper argues that despite recent advances demonstrating Mosquito agency and highlighting African contributions, several influential myths have continued in the historiography, such as the notion that the confederation's rise to power depended on access to European goods.
Molecular dynamics study on nano‐particles reinforced oxide glass
Authors: Urata Shingo , Ando Ryota , Ono Madoka , Hayashi Yasuo 
Published: December 2017

AbstractEnergy release rate and fracture toughness of amorphous aluminum nanoparticles reinforced soda‐lime silica glass (SLSG) were measured by performing fracture simulations of a single‐notched specimen via molecular dynamics simulations. The simulation procedure was first applied to conventional oxide glasses and the accuracy was verified with comparing to experimental data. According to the fracture simulations on three models of SLSG/‐Al2O3 composite, it was found that the crack propagation in the composites is prevented through following remarkable phenomena; one is that a‐Al2O3 nanoparticles increase fracture surface area by disturbing crack propagation. The other is that the deformation of a‐Al2O3 nanoparticle dissipates energy through cracking. Moreover, one of the models shows us that the crack cannot propagate if the initial notch is generated inside a‐Al2O3 nanoparticle. Such strengthening is partly due to the fact that the strength of the interface between nanoparticle and SLSG matrix is comparable to that of SLSG matrix, implying that their interface does not reduce crack resistance of the oxide glass.
Discriminating movements of liquid and gas in the rabbit colon with impedance manometry
Authors: Mohd Rosli R. , Leibbrandt R. E. , Wiklendt L. , Costa M. , Wattchow D. A. , Spencer N. J. , Brookes S. J. , Omari T. I. , Dinning P. G. 
Published: December 2017

AbstractBackgroundHigh‐resolution impedance manometry is a technique that is well established in esophageal motility studies for relating motor patterns to bolus flow. The use of this technique in the colon has not been established.MethodsIn isolated segments of rabbit proximal colon, we recorded motor patterns and the movement of liquid or gas boluses with a high‐resolution impedance manometry catheter. These detected movements were compared to video recorded changes in gut diameter. Using the characteristic shapes of the admittance (inverse of impedance) and pressure signals associated with gas or liquid flow we developed a computational algorithm for the automated detection of these events.Key ResultsPropagating contractions detected by video were also recorded by manometry and impedance. Neither pressure nor admittance signals alone could distinguish between liquid and gas transit, however the precise relationship between admittance and pressure signals during bolus flow could. Training our computational algorithm upon these characteristic shapes yielded a detection accuracy of 87.7% when compared to gas or liquid bolus events detected by manual analysis.Conclusions & inferencesCharacterizing the relationship between both admittance and pressure recorded with high‐resolution impedance manometry can not only help in detecting luminal transit in real time, but also distinguishes between liquid and gaseous content. This technique holds promise for determining the propulsive nature of human colonic motor patterns.
Object‐based classification of terrestrial laser scanning point clouds for landslide monitoring
Authors: Mayr Andreas , Rutzinger Martin , Bremer Magnus , Oude Elberink Sander , Stumpf Felix , Geitner Clemens 
Published: December 2017

AbstractTerrestrial laser scanning (TLS) is often used to monitor landslides and other gravitational mass movements with high levels of geometric detail and accuracy. However, unstructured TLS point clouds lack semantic information, which is required to geomorphologically interpret the measured changes. Extracting meaningful objects in a complex and dynamic environment is challenging due to the objects' fuzziness in reality, as well as the variability and ambiguity of their patterns in a morphometric feature space. This work presents a point‐cloud‐based approach for classifying multitemporal scenes of a hillslope affected by shallow landslides. The 3D point clouds are segmented into morphologically homogeneous and spatially connected parts. These segments are classified into seven target classes (scarp, eroded area, deposit, rock outcrop and different classes of vegetation) in a two‐step procedure: a supervised classification step with a machine‐learning classifier using morphometric features, followed by a correction step based on topological rules. This improves the final object extraction considerably.
Evaluation of Facial Expression Recognition by a Smart Eyewear for Facial Direction Changes, Repeatability, and Positional Drift
Authors: Masai Katsutoshi , Kunze Kai , Sugiura Yuta , Ogata Masa , Inami Masahiko , Sugimoto Maki 
Published: December 2017

This article presents a novel smart eyewear that recognizes the wearer’s facial expressions in daily scenarios. Our device uses embedded photo-reflective sensors and machine learning to recognize the wearer’s facial expressions. Our approach focuses on skin deformations around the eyes that occur when the wearer changes his or her facial expressions. With small photo-reflective sensors, we measure the distances between the skin surface on the face and the 17 sensors embedded in the eyewear frame. A Support Vector Machine (SVM) algorithm is then applied to the information collected by the sensors. The sensors can cover various facial muscle movements. In addition, they are small and light enough to be integrated into daily-use glasses. Our evaluation of the device shows the robustness to the noises from the wearer’s facial direction changes and the slight changes in the glasses’ position, as well as the reliability of the device’s recognition capacity.The main contributions of our work are as follows: (1) We evaluated the recognition accuracy in daily scenes, showing 92.8% accuracy regardless of facial direction and removal/remount. Our device can recognize facial expressions with 78.1% accuracy for repeatability and 87.7% accuracy in case of its positional drift. (2) We designed and implemented the device by taking usability and social acceptability into account. The device looks like a conventional eyewear so that users can wear it anytime, anywhere. (3) Initial field trials in a daily life setting were undertaken to test the usability of the device.Our work is one of the first attempts to recognize and evaluate a variety of facial expressions with an unobtrusive wearable device.
Targeting CDK1 and MEK/ERK Overcomes Apoptotic Resistance in BRAF-Mutant Human Colorectal Cancer
Authors: Zhang Peng , Kawakami Hisato , Liu Weizhen , Zeng Xiangyu , Strebhardt Klaus , Tao Kaixiong , Huang Shengbing , Sinicrope Frank A. 
Published: December 2017

Abstract
The BRAFV600E mutation occurs in approximately 8% of human colorectal cancers and is associated with therapeutic resistance that is due, in part, to reactivation of MEK/ERK signaling cascade. Recently, pathway analysis identified cyclin-dependent kinase 1 (CDK1) upregulation in a subset of human BRAFV600E colorectal cancers. Therefore, it was determined whether CDK1 antagonism enhances the efficacy of MEK inhibition in BRAFV600E colorectal cancer cells. BRAFV600E colorectal cancer cell lines expressing CDK1 were sensitized to apoptosis upon siRNA knockdown or small-molecule inhibition with RO-3306 (CDK1 inhibitor) or dinaciclib (CDK1, 2, 5, 9 inhibitors). Combination of RO-3306 or dinaciclib with cobimetinib (MEK inhibitor) cooperatively enhanced apoptosis and reduced clonogenic survival versus monotherapy. Cells isogenic or ectopic for BRAFV600E displayed resistance to CDK1 inhibitors, as did cells with ectopic expression of constitutively active MEK. CDK1 inhibitors induced a CASP8-dependent apoptosis shown by caspase-8 restoration in deficient NB7 cells that enhanced dinaciclib-induced CASP3 cleavage. CDK inhibitors suppressed pro-CASP8 phosphorylation at S387, as shown by drug withdrawal, which restored p-S387 and increased mitosis. In a colorectal cancer xenograft model, dinaciclib plus cobimetinib produced significantly greater tumor growth inhibition in association with a caspase-dependent apoptosis versus either drug alone. The Cancer Genome Atlas (TCGA) transcriptomic dataset revealed overexpression of CDK1 in human colorectal cancers versus normal colon. Together, these data establish CDK1 as a novel mediator of apoptosis resistance in BRAFV600E colorectal cancers whose combined targeting with a MEK/ERK inhibitor represents an effective therapeutic strategy.
Implications: CDK1 is a novel mediator of apoptosis resistance in BRAFV600E colorectal cancers whose dual targeting with a MEK inhibitor may be therapeutically effective. Mol Cancer Res; 16(3); 378–89. ©2017 AACR.
Metabolic Profiling of Adiponectin Levels in Adults
Authors: Borges Maria Carolina , Barros Aluísio J.D. , Ferreira Diana L. Santos , Casas Juan Pablo , Horta Bernardo Lessa , Kivimaki Mika , Kumari Meena , Menon Usha , Gaunt Tom R. , Ben-Shlomo Yoav , Freitas Deise F. , Oliveira Isabel O. , Gentry-Maharaj Aleksandra , Fourkala Evangelia , Lawlor Debbie A. , Hingorani Aroon D. 
Published: December 2017

Background—
Adiponectin, a circulating adipocyte-derived protein, has insulin-sensitizing, anti-inflammatory, antiatherogenic, and cardiomyocyte-protective properties in animal models. However, the systemic effects of adiponectin in humans are unknown. Our aims were to define the metabolic profile associated with higher blood adiponectin concentration and investigate whether variation in adiponectin concentration affects the systemic metabolic profile.

Methods and Results—

We applied multivariable regression in ≤5909 adults and Mendelian randomization (using
cis
-acting genetic variants in the vicinity of the adiponectin gene as instrumental variables) for analyzing the causal effect of adiponectin in the metabolic profile of ≤37 545 adults. Participants were largely European from 6 longitudinal studies and 1 genome-wide association consortium. In the multivariable regression analyses, higher circulating adiponectin was associated with higher high-density lipoprotein lipids and lower very-low-density lipoprotein lipids, glucose levels, branched-chain amino acids, and inflammatory markers. However, these findings were not supported by Mendelian randomization analyses for most metabolites. Findings were consistent between sexes and after excluding high-risk groups (defined by age and occurrence of previous cardiovascular event) and 1 study with admixed population.

Conclusions—
Our findings indicate that blood adiponectin concentration is more likely to be an epiphenomenon in the context of metabolic disease than a key determinant.
Heritability of Atrial Fibrillation
Authors: Weng Lu-Chen , Choi Seung Hoan , Klarin Derek , Smith J. Gustav , Loh Po-Ru , Chaffin Mark , Roselli Carolina , Hulme Olivia L. , Lunetta Kathryn L. , Dupuis Josée , Benjamin Emelia J. , Newton-Cheh Christopher , Kathiresan Sekar , Ellinor Patrick T. , Lubitz Steven A. 
Published: December 2017

Background—
Previous reports have implicated multiple genetic loci associated with AF, but the contributions of genome-wide variation to AF susceptibility have not been quantified.

Methods and Results—

We assessed the contribution of genome-wide single-nucleotide polymorphism variation to AF risk (single-nucleotide polymorphism heritability,
h

2

g

) using data from 120 286 unrelated individuals of European ancestry (2987 with AF) in the population-based UK Biobank. We ascertained AF based on self-report, medical record billing codes, procedure codes, and death records. We estimated
h

2

g

using a variance components method with variants having a minor allele frequency ≥1%. We evaluated
h

2

g

in age, sex, and genomic strata of interest. The
h

2

g

for AF was 22.1% (95% confidence interval, 15.6%–28.5%) and was similar for early- versus older-onset AF (≤65 versus >65 years of age), as well as for men and women. The proportion of AF variance explained by genetic variation was mainly accounted for by common (minor allele frequency, ≥5%) variants (20.4%; 95% confidence interval, 15.1%–25.6%). Only 6.4% (95% confidence interval, 5.1%–7.7%) of AF variance was attributed to variation within known AF susceptibility, cardiac arrhythmia, and cardiomyopathy gene regions.

Conclusions—
Genetic variation contributes substantially to AF risk. The risk for AF conferred by genomic variation is similar to that observed for several other cardiovascular diseases. Established AF loci only explain a moderate proportion of disease risk, suggesting that further genetic discovery, with an emphasis on common variation, is warranted to understand the causal genetic basis of AF.