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  • Royal Society  (4)
  • Nature Publishing Group (NPG)  (2)
  • American Association of Petroleum Geologists (AAPG)  (1)
  • Cambridge University Press
  • Elsevier
  • International Union of Crystallography (IUC)
  • Macmillian Magazines Ltd.
  • 2015-2019  (7)
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  • 1
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    The amino acid sensor GCN2 controls gut inflammation by inhibiting inflammasome activation (2016)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2016-03-17
    Description: The integrated stress response (ISR) is a homeostatic mechanism by which eukaryotic cells sense and respond to stress-inducing signals, such as amino acid starvation. General controlled non-repressed (GCN2) kinase is a key orchestrator of the ISR, and modulates protein synthesis in response to amino acid starvation. Here we demonstrate in mice that GCN2 controls intestinal inflammation by suppressing inflammasome activation. Enhanced activation of ISR was observed in intestinal antigen presenting cells (APCs) and epithelial cells during amino acid starvation, or intestinal inflammation. Genetic deletion of Gcn2 (also known as Eif2ka4) in CD11c(+) APCs or intestinal epithelial cells resulted in enhanced intestinal inflammation and T helper 17 cell (TH17) responses, owing to enhanced inflammasome activation and interleukin (IL)-1beta production. This was caused by reduced autophagy in Gcn2(-/-) intestinal APCs and epithelial cells, leading to increased reactive oxygen species (ROS), a potent activator of inflammasomes. Thus, conditional ablation of Atg5 or Atg7 in intestinal APCs resulted in enhanced ROS and TH17 responses. Furthermore, in vivo blockade of ROS and IL-1beta resulted in inhibition of TH17 responses and reduced inflammation in Gcn2(-/-) mice. Importantly, acute amino acid starvation suppressed intestinal inflammation via a mechanism dependent on GCN2. These results reveal a mechanism that couples amino acid sensing with control of intestinal inflammation via GCN2.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4854628/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4854628/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ravindran, Rajesh -- Loebbermann, Jens -- Nakaya, Helder I -- Khan, Nooruddin -- Ma, Hualing -- Gama, Leonardo -- Machiah, Deepa K -- Lawson, Benton -- Hakimpour, Paul -- Wang, Yi-chong -- Li, Shuzhao -- Sharma, Prachi -- Kaufman, Randal J -- Martinez, Jennifer -- Pulendran, Bali -- R01 DK088227/DK/NIDDK NIH HHS/ -- R01 DK103185/DK/NIDDK NIH HHS/ -- R37 AI048638/AI/NIAID NIH HHS/ -- R37 DK042394/DK/NIDDK NIH HHS/ -- R37 DK057665/DK/NIDDK NIH HHS/ -- U19 AI057266/AI/NIAID NIH HHS/ -- U19 AI090023/AI/NIAID NIH HHS/ -- ZIA ES103286-01/Intramural NIH HHS/ -- England -- Nature. 2016 Mar 24;531(7595):523-7. doi: 10.1038/nature17186. Epub 2016 Mar 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Emory Vaccine Center, Yerkes National Primate Research Center, 954 Gatewood Road, Atlanta, Georgia 30329, USA. ; School of Pharmaceutical Sciences, University of Sao Paulo, Sao Paulo 05508, Brazil. ; Department of Biotechnology and Bioinformatics, School of Life Sciences, University of Hyderabad, Hyderabad 500 046, India. ; Division of Pathology, Yerkes National Primate Research Center, 954 Gatewood Road, Atlanta, Georgia 30329, USA. ; Virology Core, Emory Vaccine Center and Yerkes National Primate Research Center, 954 Gatewood Road, Atlanta, Georgia 30329, USA. ; Degenerative Disease Program, Sanford Burnham Prebys Medical Discovery Institute, 10901 North Torrey Pines Road, La Jolla, California 92037 USA. ; National Institute of Environmental Health Sciences, Mail Drop D2-01 Research Triangle Park, North Carolina 27709, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26982722" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acids/administration & dosage/deficiency/*metabolism/pharmacology ; Animals ; Antigen-Presenting Cells/immunology/metabolism ; Autophagy ; Colitis/etiology/*metabolism/pathology/prevention & control ; Disease Models, Animal ; Epithelial Cells/metabolism ; Female ; Humans ; Inflammasomes/*antagonists & inhibitors/metabolism ; Inflammation/etiology/*metabolism/pathology/prevention & control ; Interleukin-1beta/immunology ; Intestines/*metabolism/*pathology ; Male ; Mice ; Microtubule-Associated Proteins/deficiency/metabolism ; Protein-Serine-Threonine Kinases/deficiency/genetics/*metabolism ; Reactive Oxygen Species/metabolism ; Stress, Physiological ; Th17 Cells/immunology ; Ubiquitin-Activating Enzymes/deficiency/metabolism
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 2
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    A receptor heteromer mediates the male perception of female attractants in plants (2016)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2016-02-11
    Description: Sexual reproduction requires recognition between the male and female gametes. In flowering plants, the immobile sperms are delivered to the ovule-enclosed female gametophyte by guided pollen tube growth. Although the female gametophyte-secreted peptides have been identified to be the chemotactic attractant to the pollen tube, the male receptor(s) is still unknown. Here we identify a cell-surface receptor heteromer, MDIS1-MIK, on the pollen tube that perceives female attractant LURE1 in Arabidopsis thaliana. MDIS1, MIK1 and MIK2 are plasma-membrane-localized receptor-like kinases with extracellular leucine-rich repeats and an intracellular kinase domain. LURE1 specifically binds the extracellular domains of MDIS1, MIK1 and MIK2, whereas mdis1 and mik1 mik2 mutant pollen tubes respond less sensitively to LURE1. Furthermore, LURE1 triggers dimerization of the receptors and activates the kinase activity of MIK1. Importantly, transformation of AtMDIS1 to the sister species Capsella rubella can partially break down the reproductive isolation barrier. Our findings reveal a new mechanism of the male perception of the female attracting signals.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wang, Tong -- Liang, Liang -- Xue, Yong -- Jia, Peng-Fei -- Chen, Wei -- Zhang, Meng-Xia -- Wang, Ying-Chun -- Li, Hong-Ju -- Yang, Wei-Cai -- England -- Nature. 2016 Mar 10;531(7593):241-4. doi: 10.1038/nature16975. Epub 2016 Feb 10.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉State Key Laboratory of Molecular and Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. ; University of Chinese Academy of Sciences, Beijing 100049, China.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26863186" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/genetics/*metabolism/physiology ; Arabidopsis Proteins/chemistry/genetics/*metabolism ; Capsella/genetics/metabolism/physiology ; Cell Membrane/metabolism ; Mutation ; Ovule/metabolism ; Phenotype ; Phosphotransferases/chemistry/genetics/*metabolism ; Pollen Tube/genetics/growth & development/metabolism ; Protein Kinases/genetics/metabolism ; Protein Multimerization ; Protein Structure, Quaternary ; Protein Structure, Tertiary ; Receptors, Cell Surface/chemistry/genetics/*metabolism ; Reproduction ; *Signal Transduction
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 3
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    Optimal localization of diffusion sources in complex networks (2017)
    Royal Society
    Details
    Publication Date: 2017-04-13
    Description: Locating sources of diffusion and spreading from minimum data is a significant problem in network science with great applied values to the society. However, a general theoretical framework dealing with optimal source localization is lacking. Combining the controllability theory for complex networks and compressive sensing, we develop a framework with high efficiency and robustness for optimal source localization in arbitrary weighted networks with arbitrary distribution of sources. We offer a minimum output analysis to quantify the source locatability through a minimal number of messenger nodes that produce sufficient measurement for fully locating the sources. When the minimum messenger nodes are discerned, the problem of optimal source localization becomes one of sparse signal reconstruction, which can be solved using compressive sensing. Application of our framework to model and empirical networks demonstrates that sources in homogeneous and denser networks are more readily to be located. A surprising finding is that, for a connected undirected network with random link weights and weak noise, a single messenger node is sufficient for locating any number of sources. The framework deepens our understanding of the network source localization problem and offers efficient tools with broad applications.
    Keywords: complexity, graph theory
    Electronic ISSN: 2054-5703
    Topics: Natural Sciences in General
    Published by Royal Society
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  • 4
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    Shelf-edge trajectories and stratal stacking patterns: Their sequence-stratigraphic significance and relation to styles of deep-water sedimentation and amount of deep-water sandstone (2015)
    American Association of Petroleum Geologists (AAPG)
    Details
    Publication Date: 2015-07-07
    Description: Using a seismic database from the Qiongdongnan Basin in the South China Sea, this study demonstrates that shelf-edge trajectories and stratal stacking patterns are reliable, but understated, predictors of deep-water sedimentation styles and volumes of deep-water sand deposits, assisting greatly in locating sand-rich environments and in developing a more predictive and dynamic stratigraphy. Three main types of shelf-edge trajectories and their associated stratal stacking patterns were recognized: (1) flat to slightly falling trajectories with negative trajectory angles ( $${T}_{\mathrm{se}}$$ ) (–2° to 0°) and negative shelf-edge aggradation to progradation ratios ( $$\mathrm{d}y/\mathrm{d}x$$ ) (–0.04 to 0) and associated progradational and downstepping stacking patterns with low clinoform relief ( $${R}_{\mathrm{c}}$$ ) (150–550 m [492–1804 ft]) and negative differential sedimentation on the shelf and basin ( $${A}_{\mathrm{s}}/{A}_{\mathrm{b}}$$ ) (–0.6 to 0); (2) slightly rising trajectories with moderate $${T}_{\mathrm{se}}$$ (0°–2°) and medium $$\mathrm{d}y/\mathrm{d}x$$ (0–0.04), and associated progradational and aggradational stacking patterns with intermediate $${R}_{\mathrm{c}}$$ (250–400 m [820–1312 ft]) and intermediate $${A}_{\mathrm{s}}/{A}_{\mathrm{b}}$$ (0–0.6); and (3) steeply rising trajectories with high $${T}_{\mathrm{se}}$$ (2°–6°) and high $$\mathrm{d}y/\mathrm{d}x$$ (0.04–0.10) and associated dominantly aggradational stacking patterns with high $${R}_{\mathrm{c}}$$ (350–650 m [1148–2132 ft]) and high $${A}_{\mathrm{s}}/{A}_{\mathrm{b}}$$ (1–2). Each trajectory regime represents a specific stratal stacking patterns, providing new tools to define a model-independent methodology for sequence stratigraphy. Flat to slightly falling shelf-edge trajectories and progradational and downstepping stacking patterns are empirically related to large-scale, sand-rich gravity flows and associated bigger and thicker sand-rich submarine fan systems. Slightly rising shelf-edge trajectories and progradational and aggradational stacking patterns are associated with mixed sand/mud gravity flows and moderate-scale slope-sand deposits. Steeply rising shelf-edge trajectories and dominantly aggradational stacking patterns are fronted by large-scale mass-wasting processes and associated areally extensive mass-transport systems. Therefore, given a constant sediment supply, then $${T}_{\mathrm{se}}$$ , $$\mathrm{d}y/\mathrm{d}x$$ , $${R}_{\mathrm{c}}$$ , and $${A}_{\mathrm{s}}/{A}_{\mathrm{b}}$$ are all proportional to intensity of mass-wasting processes and to amounts of mass-transport deposits, and are inversely proportional to the intensity of sand-rich gravity flows and to amounts of deep-water sandstone. These relationships can be employed to relate quantitative characteristics of shelf-edge trajectories and stratal stacking patterns to deep-water sedimentation styles.
    Print ISSN: 0149-1423
    Electronic ISSN: 0149-1423
    Topics: Geosciences
    Published by American Association of Petroleum Geologists (AAPG)
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  • 5
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    Compressor map regression modelling based on partial least squares (2018)
    Royal Society
    Details
    Publication Date: 2018-08-30
    Description: In this work, two kinds of partial least squares modelling methods are applied to predict a compressor map: one uses a power function polynomial as the basis function (PLSO), and the other uses a trigonometric function polynomial (PLSN). To demonstrate the potential capabilities of PLSO and PLSN for a typical interpolated prediction and an extrapolated prediction, they are compared with two other classical data-driven modelling methods, namely the look-up table and artificial neural network (ANN). PLSO and PLSN are also compared with each other. The results show that PLSO and PLSN have a better prediction performance than the look-up table and the ANN, especially for the extrapolated prediction. The computational time is also decreased sharply. Compared with PLSO, PLSN is characterized by a higher prediction accuracy and shorter computational time than PLSO. It is expected that PLSN could save computational time and also improve the accuracy of a thermodynamic model of a diesel engine.
    Keywords: mathematical modelling, mechanical engineering, power and energy systems
    Electronic ISSN: 2054-5703
    Topics: Natural Sciences in General
    Published by Royal Society
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  • 6
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    Optimized modelling and application of exhaust gas recirculation performance evaluation of turbocharged diesel engine (2018)
    Royal Society
    Details
    Publication Date: 2018-06-28
    Description: Aimed at the problem of exhaust gas recirculation (EGR) performance evaluation and optimal EGR rate determination of turbocharged diesel engines, an optimized decision-making method, based on grey theory and entropy weight, was proposed. The internal combustion pressure, fuel consumption rate, NO X , CO and smoke were selected as the decision-making targets and the initial decision-making model was established based on the traditional grey decision-making theory. According to the characteristics and optimization requirements of EGR, the optimal compromise between combustion and emission performance is proposed to transform into decision-making target weighting problem, then an optimized subjective weighting method based on expert scoring and grey relational analysis is proposed. Finally, the entropy weight method was used to solve the objective weight and the optimized multi-objective grey decision-making model was established, which can not only weaken the human error of subjective empowerment, but also fully explore the intrinsic relationship of the evaluation indexes. At last, an optimization simulation platform for EGR performance evaluation based on MATLB/GUIDE was designed and established. The results show that the optimization simulation platform can effectively improve the efficiency of simulation calculation, which is more convenient for practical engineering applications. The optimized method can successfully realize EGR performance evaluation and optimal EGR rate determination under different working conditions. The decision-making result was consistent with the present EGR control strategies, which provide a new research idea for EGR performance optimization.
    Keywords: mechanical engineering, energy, applied mathematics
    Electronic ISSN: 2054-5703
    Topics: Natural Sciences in General
    Published by Royal Society
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  • 7
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    A prediction model of compressor with variable-geometry diffuser based on elliptic equation and partial least squares (2018)
    Royal Society
    Details
    Publication Date: 2018-01-25
    Description: To achieve a much more extensive intake air flow range of the diesel engine, a variable-geometry compressor (VGC) is introduced into a turbocharged diesel engine. However, due to the variable diffuser vane angle (DVA), the prediction for the performance of the VGC becomes more difficult than for a normal compressor. In the present study, a prediction model comprising an elliptical equation and a PLS (partial least-squares) model was proposed to predict the performance of the VGC. The speed lines of the pressure ratio map and the efficiency map were fitted with the elliptical equation, and the coefficients of the elliptical equation were introduced into the PLS model to build the polynomial relationship between the coefficients and the relative speed, the DVA. Further, the maximal order of the polynomial was investigated in detail to reduce the number of sub-coefficients and achieve acceptable fit accuracy simultaneously. The prediction model was validated with sample data and in order to present the superiority of compressor performance prediction, the prediction results of this model were compared with those of the look-up table and back-propagation neural networks (BPNNs). The validation and comparison results show that the prediction accuracy of the new developed model is acceptable, and this model is much more suitable than the look-up table and the BPNN methods under the same condition in VGC performance prediction. Moreover, the new developed prediction model provides a novel and effective prediction solution for the VGC and can be used to improve the accuracy of the thermodynamic model for turbocharged diesel engines in the future.
    Keywords: mathematical modelling, mechanical engineering
    Electronic ISSN: 2054-5703
    Topics: Natural Sciences in General
    Published by Royal Society
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