bluuebunny/crossref_metadata_2025_split huggingface dataset:
Insulin-IGF signaling affects cell transformation in the BALB/c 3T3 cell model
Authors: Poburski Doerte , Leovsky Christiane , Boerner Josefine Barbara , Szimmtenings Luisa , Ristow Michael , Glei Michael , Thierbach René 
Published: November 2016

AbstractThe increased cancer mortality of diabetes type 2 patients is most likely an evidence of the tight connection between tumor development and energy metabolism. A major focus of today’s research is still the identification of key proteins of both diseases and the development of corresponding inhibitors. In this study we combined the two-stage BALB/c-3T3 cell transformation assay (BALB-CTA) with the IR/IGF-1R inhibitor OSI-906 (linsitinib) and analyzed alterations in protein activity and energy parameters in non-transformed as well as transformed cells. OSI-906 successfully inhibited the phosphorylation of IR/IGF-1R and decreased cell growth in non-transformed cells. In the BALB-CTA, a permanent treatment with OSI-906 reduced cellular transformation dose-dependently, whereas a temporary treatment gave evidence for a preventive effect in the promotion phase. Furthermore, even though several key proteins were affected, it was possible to show that the phosphorylation of GSK3, Erk 1/2 and the S6 protein are not crucial for the cell foci reducing effect of OSI-906. Taken together, the BALB-CTA confirmed results of OSI-906 from animal studies and enhanced the knowledge of its mode of action. Therefore, the BALB-CTA offers the opportunity to analyze alterations in the transformation process more precisely and will be helpful to identify effective cancer treatments.
An automated approach to prepare tissue-derived spatially barcoded RNA-sequencing libraries
Authors: Jemt Anders , Salmén Fredrik , Lundmark Anna , Mollbrink Annelie , Fernández Navarro José , Ståhl Patrik L. , Yucel-Lindberg Tülay , Lundeberg Joakim 
Published: November 2016

AbstractSequencing the nucleic acid content of individual cells or specific biological samples is becoming increasingly common. This drives the need for robust, scalable and automated library preparation protocols. Furthermore, an increased understanding of tissue heterogeneity has lead to the development of several unique sequencing protocols that aim to retain or infer spatial context. In this study, a protocol for retaining spatial information of transcripts has been adapted to run on a robotic workstation. The method spatial transcriptomics is evaluated in terms of robustness and variability through the preparation of reference RNA, as well as through preparation and sequencing of six replicate sections of a gingival tissue biopsy from a patient with periodontitis. The results are reduced technical variability between replicates and a higher throughput, processing four times more samples with less than a third of the hands on time, compared to the standard protocol.
Optimal 2D-SIM reconstruction by two filtering steps with Richardson-Lucy deconvolution
Authors: Perez Victor , Chang Bo-Jui , Stelzer Ernst Hans Karl 
Published: November 2016

AbstractStructured illumination microscopy relies on reconstruction algorithms to yield super-resolution images. Artifacts can arise in the reconstruction and affect the image quality. Current reconstruction methods involve a parametrized apodization function and a Wiener filter. Empirically tuning the parameters in these functions can minimize artifacts, but such an approach is subjective and produces volatile results. We present a robust and objective method that yields optimal results by two straightforward filtering steps with Richardson-Lucy-based deconvolutions. We provide a resource to identify artifacts in 2D-SIM images by analyzing two main reasons for artifacts, out-of-focus background and a fluctuating reconstruction spectrum. We show how the filtering steps improve images of test specimens, microtubules, yeast and mammalian cells.
Quantum dot-like excitonic behavior in individual single walled-carbon nanotubes
Authors: Wang Xu , Alexander-Webber Jack A. , Jia Wei , Reid Benjamin P. L. , Stranks Samuel D. , Holmes Mark J. , Chan Christopher C. S. , Deng Chaoyong , Nicholas Robin J. , Taylor Robert A. 
Published: November 2016

AbstractSemiconducting single-walled carbon nanotubes are one-dimensional materials with great prospects for applications such as optoelectronic and quantum information devices. Yet, their optical performance is hindered by low fluorescent yield. Highly mobile excitons interacting with quenching sites are attributed to be one of the main non-radiative decay mechanisms that shortens the exciton lifetime. In this paper we report on time-integrated photoluminescence measurements on individual polymer wrapped semiconducting carbon nanotubes. An ultra narrow linewidth we observed demonstrates intrinsic exciton dynamics. Furthermore, we identify a state filling effect in individual carbon nanotubes at cryogenic temperatures as previously observed in quantum dots. We propose that each of the CNTs is segmented into a chain of zero-dimensional states confined by a varying local potential along the CNT, determined by local environmental factors such as the amount of polymer wrapping. Spectral diffusion is also observed, which is consistent with the tunneling of excitons between these confined states.
Colon cancer subtypes: concordance, effect on survival and selection of the most representative preclinical models
Authors: Sztupinszki Zsófia , Győrffy Balázs 
Published: November 2016

AbstractMultiple gene-expression-based subtypes have been proposed for the molecular subdivision of colon cancer in the last decade. We aimed to cross-validate these classifiers to explore their concordance and their power to predict survival. A gene-chip-based database comprising 2,166 samples from 12 independent datasets was set up. A total of 22 different molecular subtypes were re-trained including the CCHS, CIN25, CMS, ColoGuideEx, ColoGuidePro, CRCassigner, MDA114, Meta163, ODXcolon, Oncodefender, TCA19, and V7RHS classifiers as well as subtypes established by Budinska, Chang, DeSousa, Marisa, Merlos, Popovici, Schetter, Yuen, and Watanabe (first authors). Correlation with survival was assessed by Cox proportional hazards regression for each classifier using relapse-free survival data. The highest efficacy at predicting survival in stage 2–3 patients was achieved by Yuen (p = 3.9e-05, HR = 2.9), Marisa (p = 2.6e-05, HR = 2.6) and Chang (p = 9e-09, HR = 2.35). Finally, 61 colon cancer cell lines from four independent studies were assigned to the closest molecular subtype.
Overlooked Role of Mesoscale Winds in Powering Ocean Diapycnal Mixing
Authors: Jing Zhao , Wu Lixin , Ma Xiaohui , Chang Ping 
Published: November 2016

AbstractDiapycnal mixing affects the uptake of heat and carbon by the ocean as well as plays an important role in global ocean circulations and climate. In the thermocline, winds provide an important energy source for furnishing diapycnal mixing primarily through the generation of near-inertial internal waves. However, this contribution is largely missing in the current generation of climate models. In this study, it is found that mesoscale winds at scales of a few hundred kilometers account for more than 65% of near-inertial energy flux into the North Pacific basin and 55% of turbulent kinetic dissipation rate in the thermocline, suggesting their dominance in powering diapycnal mixing in the thermocline. Furthermore, a new parameterization of wind-driven diapycnal mixing in the ocean interior for climate models is proposed, which, for the first time, successfully captures both temporal and spatial variations of wind-driven diapycnal mixing in the thermocline. It is suggested that as mesoscale winds are not resolved by the climate models participated in the Coupled Model Intercomparison Project Phase 5 (CMIP5) due to insufficient resolutions, the diapycnal mixing is likely poorly represented, raising concerns about the accuracy and robustness of climate change simulations and projections.
Controlling signal transport in a carbon nanotube opto-transistor
Authors: Li Jinjin , Chu Yanhui , Zhu Ka-Di 
Published: November 2016

AbstractWith the highly competitive development of communication technologies, modern information manufactures place high importance on the ability to control the transmitted signal using easy miniaturization materials. A controlled and miniaturized optical information device is, therefore, vital for researchers in information and communication fields. Here we propose a controlled signal transport in a doubly clamped carbon nanotube system, where the transmitted signal can be controlled by another pump beam. Pump off results in the transmitted signal off, while pump on results in the transmitted signal on. The more pump, the more amplified output signal transmission. Analogous with traditional cavity optomechanical system, the role of optical cavity is played by a localized exciton in carbon nanotube while the role of the mechanical element is played by the nanotube vibrations, which enables the realization of an opto-transistor based on carbon nanotube. Since the signal amplification and attenuation have been observed in traditional optomechanical system, and the nanotube optomechanical system has been realized in laboratory, the proposed carbon nanotube opto-transistor could be implemented in current experiments and open the door to potential applications in modern optical networks and future quantum networks.
Intrinsic cellular signaling mechanisms determine the sensitivity of cancer cells to virus-induced apoptosis
Authors: Wang Yunfei , Li Dawei , Luo Jian , Tian Guimei , Zhao Lisa Y. , Liao Daiqing 
Published: November 2016

AbstractCancer cells of epithelial and mesenchymal phenotypes exhibit different sensitivities to apoptosis stimuli, but the mechanisms underlying this phenomenon remain partly understood. We constructed a novel recombinant adenovirus expressing Ad12 E1A (Ad-E1A12) that can strongly induce apoptosis. Ad-E1A12 infection of epithelial cancer cells displayed dramatic detachment and apoptosis, whereas cancer cells of mesenchymal phenotypes with metastatic propensity were markedly more resistant to this virus. Notably, forced detachment of epithelial cells did not further sensitize them to Ad-E1A12-induced apoptosis, suggesting that cell detachment is a consequence rather than the cause of Ad-E1A12-induced apoptosis. Ad-E1A12 increased phosphorylation of AKT1 and ribosomal protein S6 through independent mechanisms in different cell types. Ad-E1A12–induced AKT1 phosphorylation was PI3K-dependent in epithelial cancer cells, and mTOR-dependent in mesenchymal cancer cells. Epithelial cancer cells upon Ad-E1A12-induced detachment could not sustain AKT activation due to AKT1 degradation, but AKT1 activation was maintained in mesenchymal cancer cells. Expression of epithelial cell-restricted miR-200 family in mesenchymal cells limited mTOR signaling and sensitized them to Ad-E1A12-induced cell killing. Thus, epithelial cancer cells rely on the canonical PI3K-AKT signaling pathway for survival, while mesenchymal cancer cells deploy the PI3K-independent mTORC2-AKT axis in response to strong death stimuli.
The high-affinity metal Transporters NRAMP1 and IRT1 Team up to Take up Iron under Sufficient Metal Provision
Authors: Castaings Loren , Caquot Antoine , Loubet Stéphanie , Curie Catherine 
Published: November 2016

AbstractIron (Fe) and manganese (Mn) are essential metals which, when scarce in the growth medium, are respectively taken up by the root high affinity transporters IRT1 and NRAMP1 in Arabidopsis thaliana. The molecular bases for low affinity transport however remained unknown. Since IRT1 and NRAMP1 have a broad range of substrates among metals, we tested the hypothesis that they might be functionally redundant by generating nramp1 irt1 double mutants. These plants showed extreme Fe-deficiency symptoms despite optimal provision of the metal. Their phenotype, which includes low Fe and Mn contents and a defect of Fe entry into root cells as revealed by Fe staining, is rescued by high Fe supply. Using a promoter swap-based strategy, we showed that root endodermis retains the ability to carry out high affinity Fe transport and furthermore might be important to high-affinity Mn uptake. We concluded that NRAMP1 plays a pivotal role in Fe transport by cooperating with IRT1 to take up Fe in roots under replete conditions, thus providing the first evidence for a low affinity Fe uptake system in plants.
Employing Escherichia coli-derived outer membrane vesicles as an antigen delivery platform elicits protective immunity against Acinetobacter baumannii infection
Authors: Huang Weiwei , Wang Shijie , Yao Yufeng , Xia Ye , Yang Xu , Li Kui , Sun Pengyan , Liu Cunbao , Sun Wenjia , Bai Hongmei , Chu Xiaojie , Li Yang , Ma Yanbing 
Published: November 2016

AbstractOuter membrane vesicles (OMVs) have proven to be highly immunogenic and induced an immune response against bacterial infection in human clinics and animal models. We sought to investigate whether engineered OMVs can be a feasible antigen-delivery platform for efficiently inducing specific antibody responses. In this study, Omp22 (an outer membrane protein of A. baumannii) was displayed on E. coli DH5α-derived OMVs (Omp22-OMVs) using recombinant gene technology. The morphological features of Omp22-OMVs were similar to those of wild-type OMVs (wtOMVs). Immunization with Omp22-OMVs induced high titers of Omp22-specific antibodies. In a murine sepsis model, Omp22-OMV immunization significantly protected mice from lethal challenge with a clinically isolated A. baumannii strain, which was evidenced by the increased survival rate of the mice, the reduced bacterial burdens in the lung, spleen, liver, kidney, and blood, and the suppressed serum levels of inflammatory cytokines. In vitro opsonophagocytosis assays showed that antiserum collected from Omp22-OMV-immunized mice had bactericidal activity against clinical isolates, which was partly specific antibody-dependent. These results strongly indicated that engineered OMVs could display a whole heterologous protein (~22 kDa) on the surface and effectively induce specific antibody responses, and thus OMVs have the potential to be a feasible vaccine platform.
Mitigation of radiation-induced hematopoietic injury by the polyphenolic acetate 7, 8-diacetoxy-4-methylthiocoumarin in mice
Authors: Venkateswaran Kavya , Shrivastava Anju , Agrawala Paban K. , Prasad Ashok , Kalra Namita , Pandey Parvat R. , Manda Kailash , Raj Hanumantharao G. , Parmar Virinder S. , Dwarakanath Bilikere S. 
Published: November 2016

AbstractProtection of the hematopoietic system from radiation damage, and/or mitigation of hematopoietic injury are the two major strategies for developing medical countermeasure agents (MCM) to combat radiation-induced lethality. In the present study, we investigated the potential of 7, 8-diacetoxy-4-methylthiocoumarin (DAMTC) to ameliorate radiation-induced hematopoietic damage and the associated mortality following total body irradiation (TBI) in C57BL/6 mice. Administration of DAMTC 24 hours post TBI alleviated TBI-induced myelo-suppression and pancytopenia, by augmenting lymphocytes and WBCs in the peripheral blood of mice, while bone marrow (BM) cellularity was restored through enhanced proliferation of the stem cells. It stimulated multi-lineage expansion and differentiation of myeloid progenitors in the BM and induced proliferation of splenic progenitors thereby, facilitating hematopoietic re-population. DAMTC reduced the radiation-induced apoptotic and mitotic death in the hematopoietic compartment. Recruitment of pro-inflammatory M1 macrophages in spleen contributed to the immune-protection linked to the mitigation of hematopoietic injury. Recovery of the hematopoietic compartment correlated well with mitigation of mortality at a lethal dose of 9 Gy, leading to 80% animal survival. Present study establishes the potential of DAMTC to mitigate radiation-induced injury to the hematopoietic system by stimulating the re-population of stem cells from multiple lineages.
Silver-cotton nanocomposites: Nano-design of microfibrillar structure causes morphological changes and increased tenacity
Authors: Nam Sunghyun , Condon Brian D. , Delhom Christopher D. , Fontenot Krystal R. 
Published: November 2016

AbstractThe interactions of nanoparticles with polymer hosts have important implications for directing the macroscopic properties of composite fibers, yet little is known about such interactions with hierarchically ordered natural polymers due to the difficulty of achieving uniform dispersion of nanoparticles within semi-crystalline natural fiber. In this study we have homogeneously dispersed silver nanoparticles throughout an entire volume of cotton fiber. The resulting electrostatic interaction and distinct supramolecular structure of the cotton fiber provided a favorable environment for the controlled formation of nanoparticles (12 ± 3 nm in diameter). With a high surface-to-volume ratio, the extensive interfacial contacts of the nanoparticles efficiently “glued” the structural elements of microfibrils together, producing a unique inorganic-organic hybrid substructure that reinforced the multilayered architecture of the cotton fiber.
In-situ catalyzation approach for enhancing the hydrogenation/dehydrogenation kinetics of MgH2 powders with Ni particles
Authors: El-Eskandarany M. Sherif , Shaban Ehab , Ali Naser , Aldakheel Fahad , Alkandary Abdullah 
Published: November 2016

AbstractOne practical solution for utilizing hydrogen in vehicles with proton-exchange fuel cells membranes is storing hydrogen in metal hydrides nanocrystalline powders. According to its high hydrogen capacity and low cost of production, magnesium hydride (MgH2) is a desired hydrogen storage system. Its slow hydrogenation/dehydrogenation kinetics and high thermal stability are the major barriers restricting its usage in real applications. Amongst the several methods used for enhancing the kinetics behaviors of MgH2 powders, mechanically milling the powders with one or more catalyst species has shown obvious advantages. Here we are proposing a new approach for gradual doping MgH2 powders with Ni particles upon ball milling the powders with Ni-balls milling media. This proposed is-situ method showed mutually beneficial for overcoming the agglomeration of catalysts and the formation of undesired Mg2NiH4 phase. Moreover, the decomposition temperature and the corresponding activation energy showed low values of 218 °C and 75 kJ/mol, respectively. The hydrogenation/dehydrogenation kinetics examined at 275 °C of the powders milled for 25 h took place within 2.5 min and 8 min, respectively. These powders containing 5.5 wt.% Ni performed 100-continuous cycle-life time of hydrogen charging/discharging at 275 °C within 56 h without failure or degradation.
Non-neutralizing antibodies induced by seasonal influenza vaccine prevent, not exacerbate A(H1N1)pdm09 disease
Authors: Kim Jin Hyang , Reber Adrian J. , Kumar Amrita , Ramos Patricia , Sica Gabriel , Music Nedzad , Guo Zhu , Mishina Margarita , Stevens James , York Ian A. , Jacob Joshy , Sambhara Suryaprakash 
Published: November 2016

AbstractThe association of seasonal trivalent influenza vaccine (TIV) with increased infection by 2009 pandemic H1N1 (A(H1N1)pdm09) virus, initially observed in Canada, has elicited numerous investigations on the possibility of vaccine-associated enhanced disease, but the potential mechanisms remain largely unresolved. Here, we investigated if prior immunization with TIV enhanced disease upon A(H1N1)pdm09 infection in mice. We found that A(H1N1)pdm09 infection in TIV-immunized mice did not enhance the disease, as measured by morbidity and mortality. Instead, TIV-immunized mice cleared A(H1N1)pdm09 virus and recovered at an accelerated rate compared to control mice. Prior TIV immunization was associated with potent inflammatory mediators and virus-specific CD8 T cell activation, but efficient immune regulation, partially mediated by IL-10R-signaling, prevented enhanced disease. Furthermore, in contrast to suggested pathological roles, pre-existing non-neutralizing antibodies (NNAbs) were not associated with enhanced virus replication, but rather with promoted antigen presentation through FcR-bearing cells that led to potent activation of virus-specific CD8 T cells. These findings provide new insights into interactions between pre-existing immunity and pandemic viruses.
Highly optimised reconfigurable hardware architecture of 64 bit block ciphers MISTY1 and KASUMI
Authors: Yasir  , Wu Ning , Zhang Xiao Qiang , Yahya Muhammad Rehan 
Published: November 2016

Highly optimised reconfigurable hardware architecture is proposed of 64 bit block ciphers MISTY1 and KASUMI for wide‐area cryptographic applications. The reconfigurable hardware architecture is comprised of reconfigurable components consisting of FL function, FO/FI function and XOR function designed to perform MISTY1 and KASUMI algorithms round transformation functions. In addition, reconfigurable FO/FI function is adequate to generate MISTY1 extended keys for onward use in MISTY1 round transformation function. The substitution functions S9 and S7 for MISTY1 and KASUMI algorithms are optimised for area and throughput. Common sub‐expression elimination for AND‐XOR logic combined with permutation/combination technique for AND gates reduces the area considerably, whereas parallel execution improves the throughput. With this design approach, application specific integrated circuit (ASIC) implementations using Synopsys Design Complier, SMIC 0.18 µm at 1.8 V achieved an area of 3481 NAND gates having throughput of 130.2 and 154.56 Mbits/s for MISTY1 and KASUMI, respectively. Synthesised FPGA implementation using Xilinx Artix 7 FPGA yielded an area of 487 configurable logic block (CLB) Slices having throughput of 209.43 and 248.7 Mbits/s for MISTY1 and KASUMI, respectively. Detailed design and performance analysis of reconfigurable hardware architecture of 64 bit block ciphers MISTY1 and KASUMI for ASIC implementations is described.
Effect of holding office on the behavior of politicians
Authors: Enemark Daniel , Gibson Clark C. , McCubbins Mathew D. , Seim Brigitte 
Published: November 2016

SignificanceDoes being elected to political office change an individual’s behavior? Some scholars and policymakers assert that elected officials are inherently different from nonpoliticians, whereas others argue that political institutions or the culture of politics inculcate certain behaviors. We identify the effect of holding office on behavior. We recruit in-office and out-of-office politicians in Zambia to participate in behavioral games that measure reciprocity, a behavioral trait that underpins various interactions in the political arena from bribery to lobbying to legislative bargaining. We find that holding elected office causes an increase in reciprocity. The policy implication of this finding is that political institutions, culture, and incentive structures can be designed to shape the behavior and choices of society’s leaders.
Twisted light transmission over 143 km
Authors: Krenn Mario , Handsteiner Johannes , Fink Matthias , Fickler Robert , Ursin Rupert , Malik Mehul , Zeilinger Anton 
Published: November 2016

Significance
Light is the main carrier of information. Its spatial mode allows the encoding of more than 1 bit per photon, and thus can increase the information capacity. For communication purposes, these modes need to be transmitted over large distances. Nowadays, fiber-based solutions are in their infancy, which renders free-space transmission the only possibility. We present an experiment where we investigate the behavior of the spatial modes after a distance of 143 km. With the help of an artificial neural network, we distinguished different mode superpositions up to the third order with more than 80% accuracy. Our results indicate that with state-of-the-art adaptive optics systems, both classical communication and entanglement transmission is feasible over distances of more than 100 km.