bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrated III-V Photonic Crystal – Si waveguide platform with tailored optomechanical coupling
Authors: Tsvirkun Viktor , Surrente Alessandro , Raineri Fabrice , Beaudoin Grégoire , Raj Rama , Sagnes Isabelle , Robert-Philip Isabelle , Braive Rémy 
Published: November 2015

AbstractOptomechanical systems, in which the vibrations of a mechanical resonator are coupled to an electromagnetic radiation, have permitted the investigation of a wealth of novel physical effects. To fully exploit these phenomena in realistic circuits and to achieve different functionalities on a single chip, the integration of optomechanical resonators is mandatory. Here, we propose a novel approach to heterogeneously integrate arrays of two-dimensional photonic crystal defect cavities on top of silicon-on-insulator waveguides. The optomechanical response of these devices is investigated and evidences an optomechanical coupling involving both dispersive and dissipative mechanisms. By controlling the optical coupling between the waveguide and the photonic crystal, we were able to vary and understand the relative strength of these couplings. This scalable platform allows for an unprecedented control on the optomechanical coupling mechanisms, with a potential benefit in cooling experiments and for the development of multi-element optomechanical circuits in the framework of optomechanically-driven signal-processing applications.
Organ-wide 3D-imaging and topological analysis of the continuous microvascular network in a murine lymph node
Authors: Kelch Inken D. , Bogle Gib , Sands Gregory B. , Phillips Anthony R. J. , LeGrice Ian J. , Rod Dunbar P. 
Published: November 2015

AbstractUnderstanding of the microvasculature has previously been limited by the lack of methods capable of capturing and modelling complete vascular networks. We used novel imaging and computational techniques to establish the topology of the entire blood vessel network of a murine lymph node, combining 63706 confocal images at 2 μm pixel resolution to cover a volume of 3.88 mm3. Detailed measurements including the distribution of vessel diameters, branch counts and identification of voids were subsequently re-visualised in 3D revealing regional specialisation within the network. By focussing on critical immune microenvironments we quantified differences in their vascular topology. We further developed a morphology-based approach to identify High Endothelial Venules, key sites for lymphocyte extravasation. These data represent a comprehensive and continuous blood vessel network of an entire organ and provide benchmark measurements that will inform modelling of blood vessel networks as well as enable comparison of vascular topology in different organs.
Dzip3 regulates developmental genes in mouse embryonic stem cells by reorganizing 3D chromatin conformation
Authors: Inoue Daishi , Aihara Hitoshi , Sato Tatsuharu , Mizusaki Hirofumi , Doiguchi Masamichi , Higashi Miki , Imamura Yuko , Yoneda Mitsuhiro , Miyanishi Takayuki , Fujii Satoshi , Okuda Akihiko , Nakagawa Takeya , Ito Takashi 
Published: November 2015

AbstractIn mouse embryonic stem (mES) cells, ubiquitylation of histone H2A lysine 119 represses a large number of developmental genes and maintains mES cell pluripotency. It has been suggested that a number of H2A ubiquitin ligases as well as deubiquitylases and related peptide fragments contribute to a delicate balance between self-renewal and multi-lineage differentiation in mES cells. Here, we tested whether known H2A ubiquitin ligases and deubiquitylases are involved in mES cell regulation and discovered that Dzip3, the E3 ligase of H2AK119, represses differentiation-inducible genes, as does Ring1B. The two sets of target genes partially overlapped but had different spectra. We found that Dzip3 represses gene expression by orchestrating changes in 3D organization, in addition to regulating ubiquitylation of H2A. Our results shed light on the epigenetic mechanism of transcriptional regulation, which depends on 3D chromatin reorganization to regulate mES cell differentiation.
Two-dimensional airflow modeling underpredicts the wind velocity over dunes
Authors: Michelsen Britt , Strobl Severin , Parteli Eric J. R. , Pöschel Thorsten 
Published: November 2015

AbstractWe investigate the average turbulent wind field over a barchan dune by means of Computational Fluid Dynamics. We find that the fractional speed-up ratio of the wind velocity over the three-dimensional barchan shape differs from the one obtained from two-dimensional calculations of the airflow over the longitudinal cut along the dune’s symmetry axis — that is, over the equivalent transverse dune of same size. This finding suggests that the modeling of the airflow over the central slice of barchan dunes is insufficient for the purpose of the quantitative description of barchan dune dynamics as three-dimensional flow effects cannot be neglected.
Catestatin attenuates endoplasmic reticulum induced cell apoptosis by activation type 2 muscarinic acetylcholine receptor in cardiac ischemia/reperfusion
Authors: Liao Feng , Zheng Yang , Cai Junyan , Fan Jinghui , Wang Jing , Yang Jichun , Cui Qinghua , Xu Guoheng , Tang Chaoshu , Geng Bin 
Published: November 2015

AbstractCatestatin (CST) is a catecholamine secretion inhibiting peptide as non-competitive inhibitor of nicotinic acetylcholine receptor. CST play a protective role in cardiac ischemia/reperfusion (I/R) but the molecular mechanism remains unclear. Cardiomyocytes endogenously produced CST and its expression was reduced after I/R. CST pretreatment decreased apoptosis especially endoplasmic reticulum (ER) stress response during I/R. The protection of CST was confirmed in H9c2 cardiomyoblasts under Anoxia/reoxygenation (A/R). In contrast, siRNA-mediated knockdown of CST exaggerated ER stress induced apoptosis. The protective effects of CST were blocked by extracellular signal-regulated kinases 1/2 (ERK1/2) inhibitor PD90895 and phosphoinositide 3-kinase (PI3 K) inhibitor wortmannin. CST also increased ERK1/2 and protein kinase B (Akt) phosphorylation and which was blocked by atropine and selective type 2 muscarinic acetylcholine (M2) receptor, but not type 1 muscarinic acetylcholine (M1) receptor antagonist. Receptor binding assay revealed that CST competitively bound to the M2 receptor with a 50% inhibitory concentration of 25.7 nM. Accordingly, CST inhibited cellular cAMP stimulated by isoproterenol or forskolin and which was blocked by selective M2 receptor antagonist. Our findings revealed that CST binds to M2 receptor, then activates ERK1/2 and PI3 K/Akt pathway to inhibit ER stress-induced cell apoptosis resulting in attenuation cardiac I/R injury.
The Effect of Rotational Disorder on the Microwave Transmission of Checkerboard Metal Square Arrays
Authors: Tremain B. , Durrant C. J. , Carter I. E. , Hibbins A. P. , Sambles J. R. 
Published: November 2015

AbstractThe effect of rotational disorder on the microwave transmission through thin metallic checkerboard arrays has been experimentally studied. Broad resonant features below the onset of diffraction, attributed to electromagnetic radiation coupling through the structure via the evanescent fields of bound surface waves, are found to be strongly dependent on the electrical connectivity of the surface. By applying rotational disorder to the elements comprising the arrays, with the lattice constant and element size unchanged, the electrical connectivity of the structure can be controlled whilst maintaining periodicity. The results show that rotational disorder can significantly affect transmission only when it changes the structure’s connectivity. When the initial structure is just above the connectivity threshold (where the metallic occupancy is 50%), increasing disorder causes the resonant features in transmission to invert as the structure switches from a predominantly connected array to a disconnected array. When approximately half of the connections are broken, the resonant features are suppressed, with scattering loss shown to dramatically increase to as much as 40% of the incident power over a broad frequency range. The result is a thin, highly effective scatterer of microwaves.
From Soybean residue to advanced supercapacitors
Authors: Ferrero G. A. , Fuertes A. B. , Sevilla M. 
Published: November 2015

AbstractSupercapacitor technology is an extremely timely area of research with fierce international competition to develop cost-effective, environmentally friendlier EC electrode materials that have real world application. Herein, nitrogen-doped carbons with large specific surface area, optimized micropore structure and surface chemistry have been prepared by means of an environmentally sound hydrothermal carbonization process using defatted soybean (i.e., Soybean meal), a widely available and cost-effective protein-rich biomass, as precursor followed by a chemical activation step. When tested as supercapacitor electrodes in aqueous electrolytes (i.e. H2SO4 and Li2SO4), they demonstrate excellent capacitive performance and robustness, with high values of specific capacitance in both gravimetric (250–260 and 176 F g−1 in H2SO4 and Li2SO4 respectively) and volumetric (150–210 and 102 F cm−3 in H2SO4 and Li2SO4 respectively) units and remarkable rate capability (>60% capacitance retention at 20 A g−1 in both media). Interestingly, when Li2SO4 is used, the voltage window is extended up to 1.7 V (in contrast to 1.1 V in H2SO4). Thus, the amount of energy stored is increased by 50% compared to H2SO4 electrolyte, enabling this environmentally sound Li2SO4-based supercapacitor to deliver ~12 Wh kg−1 at a high power density of ~2 kW kg−1.
Analysis of the Secretome of Apoptotic Peripheral Blood Mononuclear Cells: Impact of Released Proteins and Exosomes for Tissue Regeneration
Authors: Beer Lucian , Zimmermann Matthias , Mitterbauer Andreas , Ellinger Adolf , Gruber Florian , Narzt Marie-Sophie , Zellner Maria , Gyöngyösi Mariann , Madlener Sibylle , Simader Elisabeth , Gabriel Christian , Mildner Michael , Ankersmit Hendrik Jan 
Published: November 2015

AbstractWe previously showed that, when peripheral blood mononuclear cells (PBMCs) were stressed with ionizing radiation, they released paracrine factors that showed regenerative capacity in vitro and in vivo. This study aimed to characterize the secretome of PBMCs and to investigate its biologically active components in vitro and vivo. Bioinformatics analysis revealed that irradiated PBMCs differentially expressed genes that encoded secreted proteins. These genes were primarily involved in (a) pro-angiogenic and regenerative pathways and (b) the generation of oxidized phospholipids with known pro-angiogenic and inflammation-modulating properties. Subsequently, in vitro assays showed that the exosome and protein fractions of irradiated and non-irradiated PBMC secretome were the major biological components that enhanced cell mobility; conversely, secreted lipids and microparticles had no effects. We tested a viral-cleared PBMC secretome, prepared according to good manufacturing practice (GMP), in a porcine model of closed chest, acute myocardial infarction. We found that the potency for preventing ventricular remodeling was similar with the GMP-compliant and experimentally-prepared PBMC secretomes. Our results indicate that irradiation modulates the release of proteins, lipid-mediators and extracellular vesicles from human PBMCs. In addition our findings implicate the use of secretome fractions as valuable material for the development of cell-free therapies in regenerative medicine.
Enhancing the Liquid-Phase Exfoliation of Graphene in Organic Solvents upon Addition of n-Octylbenzene
Authors: Haar Sébastien , El Gemayel Mirella , Shin Yuyoung , Melinte Georgian , Squillaci Marco A. , Ersen Ovidiu , Casiraghi Cinzia , Ciesielski Artur , Samorì Paolo 
Published: November 2015

AbstractDue to a unique combination of electrical and thermal conductivity, mechanical stiffness, strength and elasticity, graphene became a rising star on the horizon of materials science. This two-dimensional material has found applications in many areas of science ranging from electronics to composites. Making use of different approaches, unfunctionalized and non-oxidized graphene sheets can be produced; among them an inexpensive and scalable method based on liquid-phase exfoliation of graphite (LPE) holds potential for applications in opto-electronics and nanocomposites. Here we have used n-octylbenzene molecules as graphene dispersion-stabilizing agents during the graphite LPE process. We have demonstrated that by tuning the ratio between organic solvents such as N-methyl-2-pyrrolidinone or ortho-dichlorobenzene and n-octylbenzene molecules, the concentration of exfoliated graphene can be enhanced by 230% as a result of the high affinity of the latter molecules for the basal plane of graphene. The LPE processed graphene dispersions were further deposited onto solid substrates by exploiting a new deposition technique called spin-controlled drop casting, which was shown to produce uniform highly conductive and transparent graphene films.
Associations between Sleep Duration and Overweight/Obesity: Results from 66,817 Chinese Adolescents
Authors: Wu Jie , Wu Hong , Wang Juan , Guo Lan , Deng Xueqing , Lu Ciyong 
Published: November 2015

AbstractThe findings about the shapes of associations between sleep duration and overweight/obesity in adolescents were largely inconsistent in the existing literature. We examined the functional forms of the associations between sleep duration and overweight/obesity in 66,817 Chinese adolescents by modelling sleep duration categorically and continuously. The adjusted ORs (95% CI) of overweight (with 7.0–8.9 h of sleep being considered the reference group) for subjects reporting <5.0 hours, 5.0–6.9 hours and ≥9.0 hours of sleep were 1.26 (1.05–1.51), 1.06 (1.00–1.11) and 1.27 (1.14–1.42), respectively. The adjusted ORs (95% CI) of obesity (with 7.0–8.9 h of daily sleep being considered as the reference group) for adolescents reporting <5.0 hours, 5.0–6.9 hours and ≥9.0 hours of sleep were 1.24 (0.97–1.57), 0.94 (0.87–1.01) and 1.42 (1.24–1.63), respectively. Continuous splines regressions support non-linear U shape associations between sleep duration and overweight/obesity, with the bottom at around 7.0–8.0 hours sleep (overweight: likelihood ratio = 32.7 p < 0.01; obesity: likelihood ratio = 40.4 p < 0.01). U-shape associations were found between sleep duration and overweight/obesity in Chinese adolescents and an optimal sleep duration of 7.0–8.0 hours sleep may prevent overweight/obesity.
Co-Expression Network Models Suggest that Stress Increases Tolerance to Mutations
Authors: Lehtinen Sonja , Bähler Jürg , Orengo Christine 
Published: November 2015

AbstractNetwork models are a well established tool for studying the robustness of complex systems, including modelling the effect of loss of function mutations in protein interaction networks. Past work has concentrated on average damage caused by random node removal, with little attention to the shape of the damage distribution. In this work, we use fission yeast co-expression networks before and after exposure to stress to model the effect of stress on mutational robustness. We find that exposure to stress decreases the average damage from node removal, suggesting stress induces greater tolerance to loss of function mutations. The shape of the damage distribution is also changed upon stress, with a greater incidence of extreme damage after exposure to stress. We demonstrate that the change in shape of the damage distribution can have considerable functional consequences, highlighting the need to consider the damage distribution in addition to average behaviour.
Targeting kinases with anilinopyrimidines: discovery of N-phenyl-N’-[4-(pyrimidin-4-ylamino)phenyl]urea derivatives as selective inhibitors of class III receptor tyrosine kinase subfamily
Authors: Gandin Valentina , Ferrarese Alessandro , Dalla Via Martina , Marzano Cristina , Chilin Adriana , Marzaro Giovanni 
Published: November 2015

AbstractKinase inhibitors are attractive drugs/drug candidates for the treatment of cancer. The most recent literature has highlighted the importance of multi target kinase inhibitors, although a correct balance between specificity and non-specificity is required. In this view, the discovery of multi-tyrosine kinase inhibitors with subfamily selectivity is a challenging goal. Herein we present the synthesis and the preliminary kinase profiling of a set of novel 4-anilinopyrimidines. Among the synthesized compounds, the N-phenyl-N’-[4-(pyrimidin-4-ylamino)phenyl]urea derivatives selectively targeted some members of class III receptor tyrosine kinase family. Starting from the structure of hit compound19 we synthesized a further compound with an improved affinity toward the class III receptor tyrosine kinase members and endowed with a promising antitumor activity both in vitro and in vivo in a murine solid tumor model. Molecular modeling simulations were used in order to rationalize the behavior of the title compounds.
Combined use of spatial restraint stress and middle cerebral artery occlusion is a novel model of post-stroke depression in mice
Authors: Zhang Gaocai , Chen Li , Yang Lingli , Hua Xiaodong , Zhou Beiqun , Miao Zhigang , Li Jizhen , Hu Hua , Namaka Michael , Kong Jiming , Xu Xingshun 
Published: November 2015

AbstractPost stroke depression (PSD) is one of the most common complications of ischemic stroke. At present, the underlying mechanisms are unclear, largely because there are no reliable, valid and reproducible animal models of PSD. Here we report a novel animal model of PSD that displays consistent and reliable clinical features of hemiplegic stroke. The animal model encompasses a combination of the middle cerebral artery occlusion (MCAO) and spatial restraint stress. We found that a 60-minute MCAO followed by spatial restraint stress for 2 h daily for 2 to 4 weeks from the fourth day after MCAO induced PSD-like depressive phenotypes in mice. Importantly, the mice showed exacerbated deficits of neurological functions and decreased body weights, which were accompanied with reduced levels of brain derived neurotrophic factor and neurotransmitters including serotonin and dopamine. In addition, we identified increased levels of serum cortisol in our PSD mice. Finally, we found that mice with PSD were responsive to the tri-cyclic antidepressant imipramine as evidenced by their attenuated depressive behaviors, increased body weights, recovered brain serotonin levels and decreased serum cortisol levels. This mouse model replicates multiple features of human post-stroke depression and thus provides a new model for the investigation of PSD.
Compression of X-ray Free Electron Laser Pulses to Attosecond Duration
Authors: Sadler James D. , Nathvani Ricky , Oleśkiewicz Piotr , Ceurvorst Luke A. , Ratan Naren , Kasim Muhammad F. , Trines Raoul M. G. M. , Bingham Robert , Norreys Peter A. 
Published: November 2015

AbstractState of the art X-ray Free Electron Laser facilities currently provide the brightest X-ray pulses available, typically with mJ energy and several hundred femtosecond duration. Here we present one- and two-dimensional Particle-in-Cell simulations, utilising the process of stimulated Raman amplification, showing that these pulses are compressed to a temporally coherent, sub-femtosecond pulse at 8% efficiency. Pulses of this type may pave the way for routine time resolution of electrons in nm size potentials. Furthermore, evidence is presented that significant Landau damping and wave-breaking may be beneficial in distorting the rear of the interaction and further reducing the final pulse duration.
Role of YAP and TAZ in pancreatic ductal adenocarcinoma and in stellate cells associated with cancer and chronic pancreatitis
Authors: Morvaridi Susan , Dhall Deepti , Greene Mark I. , Pandol Stephen J. , Wang Qiang 
Published: November 2015

AbstractPancreatic ductal adenocarcinoma (PDAC) is characterized by a fibrotic and inflammatory microenvironment that is formed primarily by activated, myofibroblast-like, stellate cells. Although the stellate cells are thought to contribute to tumorigenesis, metastasis and drug resistance of PDAC, the signaling events involved in activation of the stellate cells are not well defined. Functioning as transcription co-factors, Yes-associated protein (YAP) and its homolog transcriptional co-activator with PDZ-binding motif (TAZ) modulate the expression of genes involved in various aspects of cellular functions, such as proliferation and mobility. Using human tissues we show that YAP and TAZ expression is restricted to the centroacinar and ductal cells of normal pancreas, but is elevated in cancer cells. In particular, YAP and TAZ are expressed at high levels in the activated stellate cells of both chronic pancreatitis and PDAC patients as well as in the islets of Langerhans in chronic pancreatitis tissues. Of note, YAP is up regulated in both acinar and ductal cells following induction of acute and chronic pancreatitis in mice. These findings indicate that YAP and TAZ may play a critical role in modulating pancreatic tissue regeneration, neoplastic transformation and stellate cell functions in both PDAC and pancreatitis.
Cost-Effective and Highly Photoresponsive Nanophosphor-P3HT Photoconductive Nanocomposite for Near-Infrared Detection
Authors: Tong Yi , Zhao Xinyu , Tan Mei Chee , Zhao Rong 
Published: November 2015

AbstractThe advent of flexible optoelectronic devices has accelerated the development of semiconducting polymeric materials. We seek to replace conventional expensive semiconducting photodetector materials with our cost-effective composite system. We demonstrate in this work the successful fabrication of a photoconductive composite film of poly(3-hexylthiophene-2,5-diyl) (P3HT) mixed with NaYF4:Yb,Er nanophosphors that exhibited a ultrahigh photoresponse to infrared radiation. The high photocurrent measured was enabled by the unique upconversion properties of NaYF4:Yb,Er nanophosphors, where low photon energy infrared excitations are converted to high photon energy visible emissions that are later absorbed by P3HT. Here we report, a significant 1.10 × 105 times increment of photocurrent from our photoconductive composite film upon infrared light exposure, which indicates high optical-to-electrical conversion efficiency. Our reported work lays the groundwork for the future development of printable, portable flexible and functional photonic composites for light sensing and harvesting, photonic memory devices and phototransistors.
Augmentor α and β (FAM150) are ligands of the receptor tyrosine kinases ALK and LTK: Hierarchy and specificity of ligand–receptor interactions
Authors: Reshetnyak Andrey V. , Murray Phillip B. , Shi Xiarong , Mo Elizabeth S. , Mohanty Jyotidarsini , Tome Francisco , Bai Hanwen , Gunel Murat , Lax Irit , Schlessinger Joseph 
Published: November 2015

Significance
Many cancers (e.g., subpopulations of lung cancer, anaplastic lymphoma, and neuroblastoma) are driven by mutations in the receptor tyrosine kinase ALK (for anaplastic lymphoma kinase). However, the extracellular protein signals that regulate ALK’s activity and its ligand-induced mechanism of activation remain elusive. Here we describe a cytokine designated augmentor-α that binds with high affinity and specificity to ALK’s extracellular glycine-rich region, resulting in robust receptor activation. Augmentor-α also potently activates the related leukocyte tyrosine kinase (LTK) receptor, whereas a previously identified LTK ligand (augmentor-β) only weakly activates ALK. These experiments reveal an important missing link necessary for the regulation of a known oncogenic RTK, providing important insights into its biology and offering new opportunities for therapeutic intervention.