bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transcriptome analysis of periodontitis-associated fibroblasts by CAGE sequencing identified DLX5 and RUNX2 long variant as novel regulators involved in periodontitis
Authors: Horie Masafumi , Yamaguchi Yoko , Saito Akira , Nagase Takahide , Lizio Marina , Itoh Masayoshi , Kawaji Hideya , Lassmann Timo , Carninci Piero , Forrest Alistair R. R. , Hayashizaki Yoshihide , Suzutani Tatsuo , Kappert Kai , Micke Patrick , Ohshima Mitsuhiro 
Published: September 2016

AbstractPeriodontitis is affecting over half of the adult population and represents a major public health problem. Previously, we isolated a subset of gingival fibroblasts (GFs) from periodontitis patients, designated as periodontitis-associated fibroblasts (PAFs), which were highly capable of collagen degradation. To elucidate their molecular profiles, GFs isolated form healthy and periodontitis-affected gingival tissues were analyzed by CAGE-seq and integrated with the FANTOM5 atlas. GFs from healthy gingival tissues displayed distinctive patterns of CAGE profiles as compared to fibroblasts from other organ sites and characterized by specific expression of developmentally important transcription factors such as BARX1, PAX9, LHX8 and DLX5. In addition, a novel long non-coding RNA associated with LHX8 was described. Furthermore, we identified DLX5 regulating expression of the long variant of RUNX2 transcript, which was specifically active in GFs but not in their periodontitis-affected counterparts. Knockdown of these factors in GFs resulted in altered expression of extracellular matrix (ECM) components. These results indicate activation of DLX5 and RUNX2 via its distal promoter represents a unique feature of GFs and is important for ECM regulation. Down-regulation of these transcription factors in PAFs could be associated with their property to degrade collagen, which may impact on the process of periodontitis.
Genome-Wide Association Study Dissecting the Genetic Architecture Underlying the Branch Angle Trait in Rapeseed (Brassica napus L.)
Authors: Sun Chengming , Wang Benqi , Wang Xiaohua , Hu Kaining , Li Kaidi , Li Zhanyu , Li San , Yan Lei , Guan Chunyun , Zhang Jiefu , Zhang Zhenqian , Chen Song , Wen Jing , Tu Jinxing , Shen Jinxiong , Fu Tingdong , Yi Bin 
Published: September 2016

AbstractThe rapeseed branch angle is an important morphological trait because an adequate branch angle enables more efficient light capture under high planting densities. Here, we report that the average angle of the five top branches provides a reliable representation of the average angle of all branches. Statistical analyses revealed a significantly positive correlation between the branch angle and multiple plant-type and yield-related traits. The 60 KBrassicaInfinium®single nucleotide polymorphism (SNP) array was utilized to genotype an association panel with 520 diverse accessions. A genome-wide association study was performed to determine the genetic architecture of branch angle and 56 loci were identified as being significantly associated with the branch angle trait via three models, including a robust, novel, nonparametric Anderson-Darling (A-D) test. Moreover, these loci explained 51.1% of the phenotypic variation when a simple additive model was applied. Within the linkage disequilibrium (LD) decay ranges of 53 loci, we observed plausible candidates orthologous to documentedArabidopsisgenes, such asLAZY1,SGR2,SGR4,SGR8,SGR9,PIN3,PIN7,CRK5,TIR1andAPD7. These results provide insight into the genetic basis of the branch angle trait in rapeseed and might facilitate marker-based breeding for improvements in plant architecture.
Activation of ATP-sensitive potassium channels enhances DMT1-mediated iron uptake in SK-N-SH cells in vitro
Authors: Du Xixun , Xu Huamin , Shi Limin , Jiang Zhifeng , Song Ning , Jiang Hong , Xie Junxia 
Published: September 2016

AbstractIron importer divalent metal transporter 1 (DMT1) plays a crucial role in the nigal iron accumulation in Parkinson’s disease (PD). Membrane hyperpolarization is one of the factors that could affect its iron transport function. Besides iron, selective activation of the ATP-sensitive potassium (KATP) channels also contributes to the vulnerability of dopaminergic neurons in PD. Interestingly, activation of KATP channels could induce membrane hyperpolarization. Therefore, it is of vital importance to study the effects of activation of KATP channels on DMT1-mediated iron uptake function. In the present study, activation of KATP channels by diazoxide resulted in the hyperpolarization of the membrane potential and increased DMT1-mediated iron uptake in SK-N-SH cells. This led to an increase in intracellular iron levels and a subsequent decrease in the mitochondrial membrane potential and an increase in ROS production. Delayed inactivation of the Fe2+-evoked currents by diazoxide was recorded by patch clamp in HEK293 cells, which demonstrated that diazoxide could prolonged DMT1-facilitated iron transport. While inhibition of KATP channels by glibenclamide could block ferrous iron influx and the subsequent cell damage. Overexpression of Kir6.2/SUR1 resulted in an increase in iron influx and intracellular iron levels, which was markedly increased after diazoxide treatment.
Interference-based molecular transistors
Authors: Li Ying , Mol Jan A. , Benjamin Simon C. , Briggs G. Andrew D. 
Published: September 2016

AbstractMolecular transistors have the potential for switching with lower gate voltages than conventional field-effect transistors. We have calculated the performance of a single-molecule device in which there is interference between electron transport through the highest occupied molecular orbital and the lowest unoccupied molecular orbital of a single molecule. Quantum interference results in a subthreshold slope that is independent of temperature. For realistic parameters the change in gate potential required for a change in source-drain current of two decades is 20 mV, which is a factor of six smaller than the theoretical limit for a metal-oxide-semiconductor field-effect transistor.
One-Step Formation of Silicon-Graphene Composites from Silicon Sludge Waste and Graphene Oxide via Aerosol Process for Lithium Ion Batteries
Authors: Kim Sun Kyung , Kim Hyekyoung , Chang Hankwon , Cho Bong-Gyoo , Huang Jiaxing , Yoo Hyundong , Kim Hansu , Jang Hee Dong 
Published: September 2016

AbstractOver 40% of high-purity silicon (Si) is consumed as sludge waste consisting of Si, silicon carbide (SiC) particles and metal impurities from the fragments of cutting wire mixed in ethylene glycol based cutting fluid during Si wafer slicing in semiconductor fabrication. Recovery of Si from the waste Si sludge has been a great concern because Si particles are promising high-capacity anode materials for Li ion batteries. In this study, we report a novel one-step aerosol process that not only extracts Si particles but also generates Si-graphene (GR) composites from the colloidal mixture of waste Si sludge and graphene oxide (GO) at the same time by ultrasonic atomization-assisted spray pyrolysis. This process supports many advantages such as eco-friendly, low-energy, rapid, and simple method for forming Si-GR composite. The morphology of the as-formed Si-GR composites looked like a crumpled paper ball and the average size of the composites varied from 0.6 to 0.8 μm with variation of the process variables. The electrochemical performance was then conducted with the Si-GR composites for Lithium Ion Batteries (LIBs). The Si-GR composites exhibited very high performance as Li ion battery anodes in terms of capacity, cycling stability, and Coulombic efficiency.
Transcriptomic comparison between Brassica oleracea and rice (Oryza sativa) reveals diverse modulations on cell death in response to Sclerotinia sclerotiorum
Authors: Mei Jiaqin , Ding Yijuan , Li Yuehua , Tong Chaobo , Du Hai , Yu Yang , Wan Huafang , Xiong Qing , Yu Jingyin , Liu Shengyi , Li Jiana , Qian Wei 
Published: September 2016

AbstractSclerotinia stem rot caused by Sclerotinia sclerotiorum is a devastating disease of Brassica crops, but not in rice. The leaves of a rice line, a partial resistant (R) and a susceptible (S) Brassica oleracea pool that bulked from a resistance-segregating F2 population were employed for transcriptome sequencing before and after inoculation by S. sclerotiorum for 6 and 12 h. Distinct transcriptome profiles were revealed between B. oleracea and rice in response to S. sclerotiorum. Enrichment analyses of GO and KEGG indicated an enhancement of antioxidant activity in the R B. oleracea and rice, and histochemical staining exhibited obvious lighter reactive oxygen species (ROS) accumulation and cell death in rice and the R B. oleracea as compared to that in the S B. oleracea. Significant enhancement of Ca2+ signalling, a positive regulator of ROS and cell death, were detected in S B. oleracea after inoculation, while it was significantly repressed in the R B. oleracea group. Obvious difference was detected between two B. oleracea groups for WRKY transcription factors, particularly for those regulating cell death. These findings suggest diverse modulations on cell death in host in response to S. sclerotiorum. Our study provides useful insight into the resistant mechanism to S. sclerotiorum.
Room-Temperature All-solid-state Rechargeable Sodium-ion Batteries with a Cl-doped Na3PS4 Superionic Conductor
Authors: Chu Iek-Heng , Kompella Christopher S. , Nguyen Han , Zhu Zhuoying , Hy Sunny , Deng Zhi , Meng Ying Shirley , Ong Shyue Ping 
Published: September 2016

AbstractAll-solid-state sodium-ion batteries are promising candidates for large-scale energy storage applications. The key enabler for an all-solid-state architecture is a sodium solid electrolyte that exhibits high Na+ conductivity at ambient temperatures, as well as excellent phase and electrochemical stability. In this work, we present a first-principles-guided discovery and synthesis of a novel Cl-doped tetragonal Na3PS4 (t-Na3−xPS4−xClx) solid electrolyte with a room-temperature Na+ conductivity exceeding 1 mS cm−1. We demonstrate that an all-solid-state TiS2/t-Na3−xPS4−xClx/Na cell utilizing this solid electrolyte can be cycled at room-temperature at a rate of C/10 with a capacity of about 80 mAh g−1 over 10 cycles. We provide evidence from density functional theory calculations that this excellent electrochemical performance is not only due to the high Na+ conductivity of the solid electrolyte, but also due to the effect that “salting” Na3PS4 has on the formation of an electronically insulating, ionically conducting solid electrolyte interphase.
Helitron-like transposons contributed to the mating system transition from out-crossing to self-fertilizing in polyploid Brassica napus L.
Authors: Gao Changbin , Zhou Guilong , Ma Chaozhi , Zhai Wen , Zhang Tong , Liu Zhiquan , Yang Yong , Wu Ming , Yue Yao , Duan Zhiqiang , Li Yaya , Li Bing , Li Jijun , Shen Jinxiong , Tu Jinxing , Fu Tingdong 
Published: September 2016

AbstractThe mating system transition in polyploid Brassica napus (AACC) from out-crossing to selfing is a typical trait to differentiate it from their diploid progenitors. Elucidating the mechanism of mating system transition has profound consequences for understanding the speciation and evolution in B. napus. Functional complementation experiment has shown that the insertion of 3.6 kb into the promoter of self-incompatibility male determining gene, BnSP11-1 leads to its loss of function in B. napus. The inserted fragment was found to be a non-autonomous Helitron transposon. Further analysis showed that the inserted 3.6 kb non-autonomous Helitron transposon was widely distributed in B. napus accessions which contain the S haplotype BnS-1. Through promoter deletion analysis, an enhancer and a putative cis-regulatory element (TTCTA) that were required for spatio-temporal specific expression of BnSP11-1 were identified and both might be disrupted by the insertion of Helitron transposon. We suggested that the insertion of Helitron transposons in the promoter of BnSP11-1 gene had altered the mating system and might facilitated the speciation of B. napus. Our findings have profound consequences for understanding the self-compatibility in B. napus as well as for the trait variations during evolutionary process of plant polyploidization.
A miRNA-based signature predicts development of disease recurrence in HER2 positive breast cancer after adjuvant trastuzumab-based treatment
Authors: Du F. , Yuan P. , Zhao Z. T. , Yang Z. , Wang T. , Zhao J. D. , Luo Y. , Ma F. , Wang J. Y. , Fan Y. , Cai R. G. , Zhang P. , Li Q. , Song Y. M. , Xu B. H. 
Published: September 2016

AbstractApproximately 20% of HER2 positive breast cancer develops disease recurrence after adjuvant trastuzumab treatment. This study aimed to develop a molecular prognostic model that can reliably stratify patients by risk of developing disease recurrence. Using miRNA microarrays, nine miRNAs that differentially expressed between the recurrent and non-recurrent patients were identified. Then, we validated the expression of these miRNAs using qRT-PCR in training set (n = 101), and generated a 2-miRNA (miR-4734 and miR-150-5p) based prognostic signature. The prognostic accuracy of this classifier was further confirmed in an internal testing set (n = 57), and an external independent testing set (n = 53). Besides, by comparing the ROC curves, we found the incorporation of this miRNA based classifier into TNM stage could improve the prognostic performance of TNM system. The results indicated the 2-miRNA based signature was a reliable prognostic biomarker for patients with HER2 positive breast cancer.
Decreased sleep quality in high myopia children
Authors: Ayaki Masahiko , Torii Hidemasa , Tsubota Kazuo , Negishi Kazuno 
Published: September 2016

AbstractThe aim of the present study was to evaluate sleep quality in myopic children and adults. This cross sectional study surveyed 486 participants aged from 10 to 59 years with refractive errors using a questionnaire containing the Pittsburgh Sleep Quality Index (PSQI) and Hospital Anxiety and Depression Scale (HADS). Children (< 20 years) in the high myopia group exhibited the poorest PSQI scores (P < 0.01), while the adults showed no such correlations. Subscales of PSQI and HADS in children disclosed that the high myopia groups had the shortest sleep duration (P < 0.01), worst subjective sleep scores (P < 0.001) and latest bedtime (P < 0.05). Regression analyses in children significantly correlated myopic errors with PSQI (P < 0.05), sleep duration (P < 0.01) and bedtime (P < 0.01). Sleep efficacy (P < 0.05) and daytime dysfunction (P < 0.05) were significantly better in contact-lens users compared to the respective non-user groups across all participants. In conclusion, sleep quality in children was significantly correlated with myopic error, with the high myopia group worst affected.
Evaluation of World Population-Weighted Effective Dose due to Cosmic Ray Exposure
Authors: Sato Tatsuhiko 
Published: September 2016

AbstractAfter the release of the Report of the United Nations Scientific Committee of the Effects of Atomic Radiation in 2000 (UNSCEAR2000), it became commonly accepted that the world population-weighted effective dose due to cosmic-ray exposure is 0.38 mSv, with a range from 0.3 to 2 mSv. However, these values were derived from approximate projections of altitude and geographic dependences of the cosmic-ray dose rates as well as the world population. This study hence re-evaluated the population-weighted annual effective doses and their probability densities for the entire world as well as for 230 individual nations, using a sophisticated cosmic-ray flux calculation model in tandem with detailed grid population and elevation databases. The resulting world population-weighted annual effective dose was determined to be 0.32 mSv, which is smaller than the UNSCEAR’s evaluation by 16%, with a range from 0.23 to 0.70 mSv covering 99% of the world population. These values were noted to vary with the solar modulation condition within a range of approximately 15%. All assessed population-weighted annual effective doses as well as their statistical information for each nation are provided in the supplementary files annexed to this report. These data improve our understanding of cosmic-ray radiation exposures to populations globally.
Characterizing cognitive control abilities in children with 16p11.2 deletion using adaptive ‘video game’ technology: a pilot study
Authors: Anguera J A , Brandes-Aitken A N , Rolle C E , Skinner S N , Desai S S , Bower J D , Martucci W E , Chung W K , Sherr E H , Marco E J 
Published: September 2016

AbstractAssessing cognitive abilities in children is challenging for two primary reasons: lack of testing engagement can lead to low testing sensitivity and inherent performance variability. Here we sought to explore whether an engaging, adaptive digital cognitive platform built to look and feel like a video game would reliably measure attention-based abilities in children with and without neurodevelopmental disabilities related to a known genetic condition, 16p11.2 deletion. We assessed 20 children with 16p11.2 deletion, a genetic variation implicated in attention deficit/hyperactivity disorder and autism, as well as 16 siblings without the deletion and 75 neurotypical age-matched children. Deletion carriers showed significantly slower response times and greater response variability when compared with all non-carriers; by comparison, traditional non-adaptive selective attention assessments were unable to discriminate group differences. This phenotypic characterization highlights the potential power of administering tools that integrate adaptive psychophysical mechanics into video-game-style mechanics to achieve robust, reliable measurements.
Dual‐band balanced‐to‐unbalanced filtering power divider by coupled ring resonators
Authors: Feng Wenjie , Hong Meiling , Che Wenquan 
Published: September 2016

A dual‐band balanced‐to‐unbalanced filtering power divider by coupled ring resonators is proposed. Two passbands can be easily realised by the two coupled ring resonators. Three transmission zeros near the two passbands are used to improve the selectivity. The common mode can be easily suppressed by the bandstop performance of the open stubs. A fabricated prototype (εr = 2.65, h = 1 mm, tanδ = 0.003) with centre frequencies located at 2.82 and 3.22 GHz is designed and measured to prove the proposed methods.
Non‐isolated high‐step‐up soft switching DC/DC converter with low‐voltage stress
Authors: Gao Wei , Zhang Yang , Lv Xing‐yu , Lou Quan‐ming 
Published: September 2016

A non‐isolated high‐step‐up soft switching DC/DC converter with low‐voltage stress is developed for large conversion ratio applications, which combines a synchronous boost converter and a flyback converter with voltage multiplier in this study. The circuit structure is simplified by integrating the boost inductor and flyback transformer into a coupled inductor and sharing the switch. The voltage stresses of all the power devices are low, thus low‐voltage‐rated power devices can be adopted to reduce conduction losses. All of the switches operate under zero‐voltage turn‐on condition, thus the switching losses are reduced. Moreover, the reverse‐recovery problem of the diodes is alleviated because the decreasing rate of the diode current is limited by the leakage inductance of the coupled inductor. Additionally, the utilisation rate of the coupled inductor is improved because the coupled inductor transfers energy during the whole switching period. Finally, a 250 W prototype is built and the experimental results are provided to verify the accuracy of the theoretical analysis, and the highest measured efficiency is about 96.6%.
To the lighthouse revisited: the art economy in Mary Gordon’s Spending
Authors: Lin Yu-chen 
Published: September 2016

AbstractThis essay explores Virginia Woolf’s legacy to Mary Gordon’s Spending. More than a response to Woolf’s vision of a monetary gift to facilitate woman’s creativity, Gordon’s novel also engages To the Lighthouse in its representation of a woman painter coming to terms with her talent. Equally important, however, is the difference between the two works, as unhappiness about her lost possibilities marks the heroine’s artistic impasse in Woolf’s novel, whereas pleasure over extravagant gifts characterizes the female protagonist’s progress toward success in Gordon’s text. By re-visioning Woolf’s female artist in want in 1910s–1920s England into a woman painter in plenitude in 1990s consumerist America, Gordon’s happiness narrative delineates the possibility opened up by her unhappy predecessor. This article is published as part of a collection on gender studies.
Focal colors across languages are representative members of color categories
Authors: Abbott Joshua T. , Griffiths Thomas L. , Regier Terry 
Published: September 2016

SignificanceThe best examples of color terms across languages are often held to reflect universal focal colors in the opponent pairs red vs. green and yellow vs. blue. An opposing view holds that best examples reflect categories that are determined by local linguistic convention. We argue for a synthesis of these two proposals. We show that best examples of color terms across languages can be predicted from color term extensions using a statistical model that indicates which samples are most representative of a distribution. This model accounts for universal tendencies in best example choices across languages, and also accounts for cross-language variation. Our findings suggest that general statistical principles may illuminate fundamental aspects of color naming across languages.
WASH drives early recycling from macropinosomes and phagosomes to maintain surface phagocytic receptors
Authors: Buckley Catherine M. , Gopaldass Navin , Bosmani Cristina , Johnston Simon A. , Soldati Thierry , Insall Robert H. , King Jason S. 
Published: September 2016

SignificanceMacropinocytosis is a way for cells to engulf large volumes of their extracellular fluid. This process allows immune cells to sense their environment and detect antigens, but can also supply nutrients to both cancer cells and some unicellular organisms. However, little is known about the fate of the membrane components internalized via macropinosomes. This study explains how cells avoid the bulk digestion of their surface proteins. We identify several core components of this pathway and show that they are required for early recycling from macropinosomes. We demonstrate that this pathway is crucial for cells undergoing continuous macropinocytosis to maintain surface protein levels and is therefore physiologically important for such cells to sustain normal functions.
Nanoparticles size-dependently initiate self-limiting NETosis-driven inflammation
Authors: Muñoz Luis E. , Bilyy Rostyslav , Biermann Mona H. C. , Kienhöfer Deborah , Maueröder Christian , Hahn Jonas , Brauner Jan M. , Weidner Daniela , Chen Jin , Scharin-Mehlmann Marina , Janko Christina , Friedrich Ralf P. , Mielenz Dirk , Dumych Tetiana , Lootsik Maxim D. , Schauer Christine , Schett Georg , Hoffmann Markus , Zhao Yi , Herrmann Martin 
Published: September 2016

SignificanceThe current widespread exposure of humans to natural as well as man-made nanomaterials due to the deployment of nanoparticles (NPs) as food additives, as vaccine- or drug-delivery vehicles, and in diagnostic procedures encourages the evaluation of their interaction with the innate immune system. Understanding how organisms cope with hydrophobic and chemically inert particulate matter, which is excluded from metabolic processing, is of major importance for interpreting the responses associated with the use of NPs in the biosphere. The containment of NPs within neutrophil-derived aggregates locally orchestrates the resolution of inflammation. Overriding this mechanism bears the risk of inducing chronic inflammation and causing tissue damage.