29 results on '"Qian M"'
Search Results
2. Terahertz spoof plasmonic neural network for diffractive information recognition and processing
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Xinxin Gao, Ze Gu, Qian Ma, Bao Jie Chen, Kam-Man Shum, Wen Yi Cui, Jian Wei You, Tie Jun Cui, and Chi Hou Chan
- Subjects
Science - Abstract
Abstract All-optical diffractive neural networks, as analog artificial intelligence accelerators, leverage parallelism and analog computation for complex data processing. However, their low space transmission efficiency or large spatial dimensions hinder miniaturization and broader application. Here, we propose a terahertz spoof plasmonic neural network on a planar diffractive platform for direct multi-target recognition. Our approach employs a spoof surface plasmon polariton coupler array to construct a diffractive network layer, resulting in a compact, efficient, and easily integrable architecture. We designed three schemes: basis vector classification, multi-user recognition, and MNIST handwritten digit classification. Experimental results reveal that the terahertz spoof plasmonic neural network successfully classifies basis vectors, recognizes multi-user orientation information, and directly processes handwritten digits using a designed input framework comprising a metal grating array, transmitters, and receivers. This work broadens the application of terahertz plasmonic metamaterials, paving the way for terahertz on-chip integration, intelligent communication, and advanced computing systems.
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- 2024
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3. Multimodal tactile sensing fused with vision for dexterous robotic housekeeping
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Qian Mao, Zijian Liao, Jinfeng Yuan, and Rong Zhu
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Science - Abstract
Abstract As robots are increasingly participating in our daily lives, the quests to mimic human abilities have driven the advancements of robotic multimodal senses. However, current perceptual technologies still unsatisfied robotic needs for home tasks/environments, particularly facing great challenges in multisensory integration and fusion, rapid response capability, and highly sensitive perception. Here, we report a flexible tactile sensor utilizing thin-film thermistors to implement multimodal perceptions of pressure, temperature, matter thermal property, texture, and slippage. Notably, the tactile sensor is endowed with an ultrasensitive (0.05 mm/s) and ultrafast (4 ms) slip sensing that is indispensable for dexterous and reliable grasping control to avoid crushing fragile objects or dropping slippery objects. We further propose and develop a robotic tactile-visual fusion architecture that seamlessly encompasses multimodal sensations from the bottom level to robotic decision-making at the top level. A series of intelligent grasping strategies with rapid slip feedback control and a tactile-visual fusion recognition strategy ensure dexterous robotic grasping and accurate recognition of daily objects, handling various challenging tasks, for instance grabbing a paper cup containing liquid. Furthermore, we showcase a robotic desktop-cleaning task, the robot autonomously accomplishes multi-item sorting and cleaning desktop, demonstrating its promising potential for smart housekeeping.
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- 2024
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4. Impact of keratocyte differentiation on corneal opacity resolution and visual function recovery in male rats
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Andri K. Riau, Zhuojian Look, Gary H. F. Yam, Craig Boote, Qian Ma, Evelina J. Y. Han, Nur Zahirah binte M. Yusoff, Hon Shing Ong, Tze-Wei Goh, Nuur Shahinda Humaira binte Halim, and Jodhbir S. Mehta
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Science - Abstract
Abstract Intrastromal cell therapy utilizing quiescent corneal stromal keratocytes (qCSKs) from human donor corneas emerges as a promising treatment for corneal opacities, aiming to overcome limitations of traditional surgeries by reducing procedural complexity and donor dependency. This investigation demonstrates the therapeutic efficacy of qCSKs in a male rat model of corneal stromal opacity, underscoring the significance of cell-delivery quality and keratocyte differentiation in mediating corneal opacity resolution and visual function recovery. Quiescent CSKs-treated rats display improvements in escape latency and efficiency compared to wounded, non-treated rats in a Morris water maze, demonstrating improved visual acuity, while stromal fibroblasts-treated rats do not. Advanced imaging, including multiphoton microscopy, small-angle X-ray scattering, and transmission electron microscopy, revealed that qCSK therapy replicates the native cornea’s collagen fibril morphometry, matrix order, and ultrastructural architecture. These findings, supported by the expression of keratan sulfate proteoglycans, validate qCSKs as a potential therapeutic solution for corneal opacities.
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- 2024
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5. A spatially localized DNA linear classifier for cancer diagnosis
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Linlin Yang, Qian Tang, Mingzhi Zhang, Yuan Tian, Xiaoxing Chen, Rui Xu, Qian Ma, Pei Guo, Chao Zhang, and Da Han
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Science - Abstract
Abstract Molecular computing is an emerging paradigm that plays an essential role in data storage, bio-computation, and clinical diagnosis with the future trends of more efficient computing scheme, higher modularity with scaled-up circuity and stronger tolerance of corrupted inputs in a complex environment. Towards these goals, we construct a spatially localized, DNA integrated circuits-based classifier (DNA IC-CLA) that can perform neuromorphic architecture-based computation at a molecular level for medical diagnosis. The DNA-based classifier employs a two-dimensional DNA origami as the framework and localized processing modules as the in-frame computing core to execute arithmetic operations (e.g. multiplication, addition, subtraction) for efficient linear classification of complex patterns of miRNA inputs. We demonstrate that the DNA IC-CLA enables accurate cancer diagnosis in a faster (about 3 h) and more effective manner in synthetic and clinical samples compared to those of the traditional freely diffusible DNA circuits. We believe that this all-in-one DNA-based classifier can exhibit more applications in biocomputing in cells and medical diagnostics.
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- 2024
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6. Boosting organic phosphorescence in adaptive host-guest materials by hyperconjugation
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Huili Ma, Lishun Fu, Xiaokang Yao, Xueyan Jiang, Kaiqi Lv, Qian Ma, Huifang Shi, Zhongfu An, and Wei Huang
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Science - Abstract
Abstract Phosphorescence is ubiquitous in heavy atom-containing organic phosphors, which attracts considerable attention in optoelectronics and bioelectronics. However, heavy atom-free organic materials with efficient phosphorescence are rare under ambient conditions. Herein, we report a series of adaptive host-guest materials derived from dibenzo-heterocyclic analogues, showing host-dependent color-tunable phosphorescence with phosphorescence efficiency of up to 98.9%. The adaptive structural deformation of the guests arises from the hyperconjugation, namely the n→π* interaction, enabling them to inhabit the cavity of host crystals in synergy with steric effects. Consequently, a perfect conformation match between host and guest molecules facilitates the suppression of triplet exciton dissipation, thereby boosting the phosphorescence of these adaptive materials. Moreover, we extend this strategy to a ternary host-guest system, yielding both excitation- and time-dependent phosphorescence with a phosphorescence efficiency of 92.0%. This principle provides a concise way for obtaining efficient and color-tunable phosphorescence, making a major step toward potential applications in optoelectronics.
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- 2024
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7. Amniotes co-opt intrinsic genetic instability to protect germ-line genome integrity
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Yu H. Sun, Hongxiao Cui, Chi Song, Jiafei Teng Shen, Xiaoyu Zhuo, Ruoqiao Huiyi Wang, Xiaohui Yu, Rudo Ndamba, Qian Mu, Hanwen Gu, Duolin Wang, Gayathri Guru Murthy, Pidong Li, Fan Liang, Lei Liu, Qing Tao, Ying Wang, Sara Orlowski, Qi Xu, Huaijun Zhou, Jarra Jagne, Omer Gokcumen, Nick Anthony, Xin Zhao, and Xin Zhiguo Li
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Science - Abstract
Pachytene Piwi-interacting RNAs (piRNAs) expressed in mammalian germ lines are abundant, but their evolution and function are not fully understood. Here, the authors find that pachytene piRNA loci are hotspots of structural variation, which underlies rapid piRNA birth, divergence, and loss.
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- 2023
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8. Intelligent metasurface system for automatic tracking of moving targets and wireless communications based on computer vision
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Weihan Li, Qian Ma, Che Liu, Yunfeng Zhang, Xianning Wu, Jiawei Wang, Shizhao Gao, Tianshuo Qiu, Tonghao Liu, Qiang Xiao, Jiaxuan Wei, Ting Ting Gu, Zhize Zhou, Fashuai Li, Qiang Cheng, Lianlin Li, Wenxuan Tang, and Tie Jun Cui
- Subjects
Science - Abstract
The authors present an intelligent metasurface system that uses a target detection algorithm combined with a depth camera, to automatically detect the position of moving targets and achieve real-time wireless communications. The system can operate for multiple targets in limited ambient light, outdoor and other realistic environments.
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- 2023
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9. Kinetically restrained oxygen reduction to hydrogen peroxide with nearly 100% selectivity
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Jinxing Chen, Qian Ma, Xiliang Zheng, Youxing Fang, Jin Wang, and Shaojun Dong
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Science - Abstract
The electrocatalytic oxygen reduction reaction has been investigated in recent years for the production of H2O2 from O2. In this article, the authors report a single-atom rhodium catalyst, based on the Flavin-dependent oxidase, for this transformation.
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- 2022
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10. Reprogrammable plasmonic topological insulators with ultrafast control
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Jian Wei You, Qian Ma, Zhihao Lan, Qiang Xiao, Nicolae C. Panoiu, and Tie Jun Cui
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Science - Abstract
The development of fast and dynamic topological photonic platforms is an ongoing challenge. Here, the authors demonstrate a reprogrammable plasmonic topological insulator in which ultrafast electric switches allow for nanosecond-level switching time between different configurations.
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- 2021
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11. Glucose-oxidase like catalytic mechanism of noble metal nanozymes
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Jinxing Chen, Qian Ma, Minghua Li, Daiyong Chao, Liang Huang, Weiwei Wu, Youxing Fang, and Shaojun Dong
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Science - Abstract
Gold nanoparticles (Au NPs) with enzyme-like activities are useful glucose oxidase mimics, but the insights into the mechanism of this reaction are limited. Here, the authors show that the process of glucose oxidation by Au NPs is analogous to the one catalysed by glucose oxidase, involving dehydrogenation and oxygen reduction to H2O2; and that other noble metal NPs also catalyse glucose dehydrogenation, but oxygen is preferably reduced to water.
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- 2021
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12. Metamaterial assisted illumination nanoscopy via random super-resolution speckles
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Yeon Ui Lee, Junxiang Zhao, Qian Ma, Larousse Khosravi Khorashad, Clara Posner, Guangru Li, G. Bimananda M. Wisna, Zachary Burns, Jin Zhang, and Zhaowei Liu
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Science - Abstract
Structured illumination microscopy is usually limited to 2 times spatial resolution improvement over the diffraction limit. Here, the authors introduce a metamaterial structure to generate speckle-like sub-diffraction limit illumination patterns in the near field, and achieve a 7-fold resolution improvement down to 40 nm.
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- 2021
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13. Low-dose decitabine priming endows CAR T cells with enhanced and persistent antitumour potential via epigenetic reprogramming
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Yao Wang, Chuan Tong, Hanren Dai, Zhiqiang Wu, Xiao Han, Yelei Guo, Deyun Chen, Jianshu Wei, Dongdong Ti, Zongzhi Liu, Qian Mei, Xiang Li, Liang Dong, Jing Nie, Yajing Zhang, and Weidong Han
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Science - Abstract
De novo DNA methylation has been associated with T cell exhaustion in cancer immunotherapy. Here the authors show that the pre-treatment of CD19 CAR-T cells with the DNA methyltransferase inhibitor decitabine limits exhaustion and confers enhanced proliferative, effector and memory properties upon antigen exposure, with improved tumor control.
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- 2021
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14. PRKAA1/AMPKα1-driven glycolysis in endothelial cells exposed to disturbed flow protects against atherosclerosis
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Qiuhua Yang, Jiean Xu, Qian Ma, Zhiping Liu, Varadarajan Sudhahar, Yapeng Cao, Lina Wang, Xianqiu Zeng, Yaqi Zhou, Min Zhang, Yiming Xu, Yong Wang, Neal L. Weintraub, Chunxiang Zhang, Tohru Fukai, Chaodong Wu, Lei Huang, Zhen Han, Tao Wang, David J. Fulton, Mei Hong, and Yuqing Huo
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Science - Abstract
Increased glycolysis and inflammatory responses have been observed in endothelial cells exposed to disturbed flow. However, the role of endothelial glycolysis in atherosclerosis is unclear. Here the authors unveil a protective role for glycolysis by showing that endothelial deletion of Prkaa1 accelerates atherosclerosis in hyperlipidemic mice through a reduction of glycolytic metabolism.
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- 2018
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15. Copolymer dielectrics with balanced chain-packing density and surface polarity for high-performance flexible organic electronics
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Deyang Ji, Tao Li, Ye Zou, Ming Chu, Ke Zhou, Jinyu Liu, Guofeng Tian, Zhaoyang Zhang, Xu Zhang, Liqiang Li, Dezhen Wu, Huanli Dong, Qian Miao, Harald Fuchs, and Wenping Hu
- Subjects
Science - Abstract
Developing large-scale flexible display technologies calls for new gate dielectric materials balancing the insulating property and molecular packing of organic semiconductors. Ji et al. synthesize a dielectric copolymer contributing with charge mobility of 5 cm2 V−1 s−1 and low operating voltage of 3 V.
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- 2018
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16. Author Correction: Kisspeptin-10 binding to Gpr54 in osteoclasts prevents bone loss by activating Dusp18-mediated dephosphorylation of Src.
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Li Z, Yang X, Fu R, Wu Z, Xu S, Jiao J, Qian M, Zhang L, Wu C, Xie T, Yao J, Wu Z, Li W, Ma G, You Y, Chen Y, Zhang HK, Cheng Y, Tang X, Wu P, Lian G, Wei H, Zhao J, Xu J, Ai L, Siwko S, Wang Y, Ding J, Song G, Luo J, Liu M, and Xiao J
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- 2024
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17. Kisspeptin-10 binding to Gpr54 in osteoclasts prevents bone loss by activating Dusp18-mediated dephosphorylation of Src.
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Li Z, Yang X, Fu R, Wu Z, Xu S, Jiao J, Qian M, Zhang L, Wu C, Xie T, Yao J, Wu Z, Li W, Ma G, You Y, Chen Y, Zhang HK, Cheng Y, Tang X, Wu P, Lian G, Wei H, Zhao J, Xu J, Ai L, Siwko S, Wang Y, Ding J, Song G, Luo J, Liu M, and Xiao J
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- Animals, Mice, Kisspeptins genetics, Kisspeptins metabolism, Receptors, G-Protein-Coupled metabolism, src-Family Kinases genetics, src-Family Kinases metabolism, Mice, Knockout, Receptors, Kisspeptin-1, Osteoclasts metabolism, Bone Resorption genetics
- Abstract
Osteoclasts are over-activated as we age, which results in bone loss. Src deficiency in mice leads to severe osteopetrosis due to a functional defect in osteoclasts, indicating that Src function is essential in osteoclasts. G-protein-coupled receptors (GPCRs) are the targets for ∼35% of approved drugs but it is still unclear how GPCRs regulate Src kinase activity. Here, we reveal that GPR54 activation by its natural ligand Kisspeptin-10 (Kp-10) causes Dusp18 to dephosphorylate Src at Tyr 416. Mechanistically, Gpr54 recruits both active Src and the Dusp18 phosphatase at its proline/arginine-rich motif in its C terminus. We show that Kp-10 binding to Gpr54 leads to the up-regulation of Dusp18. Kiss1, Gpr54 and Dusp18 knockout mice all exhibit osteoclast hyperactivation and bone loss, and Kp-10 abrogated bone loss by suppressing osteoclast activity in vivo. Therefore, Kp-10/Gpr54 is a promising therapeutic target to abrogate bone resorption by Dusp18-mediated Src dephosphorylation., (© 2024. The Author(s).)
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- 2024
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18. Single-cell metabolic fingerprints discover a cluster of circulating tumor cells with distinct metastatic potential.
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Zhang W, Xu F, Yao J, Mao C, Zhu M, Qian M, Hu J, Zhong H, Zhou J, Shi X, and Chen Y
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- Humans, Biomarkers, Tumor metabolism, Epithelial-Mesenchymal Transition, Metabolomics, Neoplasm Metastasis, Neoplastic Cells, Circulating metabolism
- Abstract
Circulating tumor cells (CTCs) are recognized as direct seeds of metastasis. However, CTC count may not be the "best" indicator of metastatic risk because their heterogeneity is generally neglected. In this study, we develop a molecular typing system to predict colorectal cancer metastasis potential based on the metabolic fingerprints of single CTCs. After identification of the metabolites potentially related to metastasis using mass spectrometry-based untargeted metabolomics, setup of a home-built single-cell quantitative mass spectrometric platform for target metabolite analysis in individual CTCs and use of a machine learning method composed of non-negative matrix factorization and logistic regression, CTCs are divided into two subgroups, C1 and C2, based on a 4-metabolite fingerprint. Both in vitro and in vivo experiments demonstrate that CTC count in C2 subgroup is closely associated with metastasis incidence. This is an interesting report on the presence of a specific population of CTCs with distinct metastatic potential at the single-cell metabolite level., (© 2023. The Author(s).)
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- 2023
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19. Migration of solidification grain boundaries and prediction.
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Liu H, Lu S, Zhang Y, Chen H, Chen Y, and Qian M
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Solidification processing is essential to the manufacture of various metal products, including additive manufacturing. Solidification grain boundaries (SGBs) result from the solidification of the last liquid film between two abutting grains of different orientations. They can migrate, but unlike normal GB migration, SGB migration (SGBM) decouples SGBs from solidification microsegregation, further affecting material properties. Here, we first show the salient features of SGBM in magnesium-tin alloys solidified with cooling rates of 8-1690 °C/s. A theoretical model is then developed for SGBM in dilute binary alloys, focusing on the effect of solute type and content, and applied to 10 alloy systems with remarkable agreement. SGMB does not depend on cooling rate or time but relates to grain size. It tends to occur athermally. The findings of this study extend perspectives on solidification grain structure formation and control for improved performance (e.g. hot or liquation cracking during reheating, intergranular corrosion or fracture)., (© 2022. The Author(s).)
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- 2022
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20. Hedgehog-Interacting Protein is a multimodal antagonist of Hedgehog signalling.
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Griffiths SC, Schwab RA, El Omari K, Bishop B, Iverson EJ, Malinauskas T, Dubey R, Qian M, Covey DF, Gilbert RJC, Rohatgi R, and Siebold C
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- Carrier Proteins genetics, Cholesterol chemistry, Cholesterol metabolism, Glycosaminoglycans chemistry, Glycosaminoglycans metabolism, Hedgehog Proteins chemistry, Hedgehog Proteins genetics, Humans, Ligands, Membrane Glycoproteins genetics, Protein Binding, Protein Domains, Carrier Proteins chemistry, Carrier Proteins metabolism, Hedgehog Proteins metabolism, Membrane Glycoproteins chemistry, Membrane Glycoproteins metabolism, Signal Transduction
- Abstract
Hedgehog (HH) morphogen signalling, crucial for cell growth and tissue patterning in animals, is initiated by the binding of dually lipidated HH ligands to cell surface receptors. Hedgehog-Interacting Protein (HHIP), the only reported secreted inhibitor of Sonic Hedgehog (SHH) signalling, binds directly to SHH with high nanomolar affinity, sequestering SHH. Here, we report the structure of the HHIP N-terminal domain (HHIP-N) in complex with a glycosaminoglycan (GAG). HHIP-N displays a unique bipartite fold with a GAG-binding domain alongside a Cysteine Rich Domain (CRD). We show that HHIP-N is required to convey full HHIP inhibitory function, likely by interacting with the cholesterol moiety covalently linked to HH ligands, thereby preventing this SHH-attached cholesterol from binding to the HH receptor Patched (PTCH1). We also present the structure of the HHIP C-terminal domain in complex with the GAG heparin. Heparin can bind to both HHIP-N and HHIP-C, thereby inducing clustering at the cell surface and generating a high-avidity platform for SHH sequestration and inhibition. Our data suggest a multimodal mechanism, in which HHIP can bind two specific sites on the SHH morphogen, alongside multiple GAG interactions, to inhibit SHH signalling., (© 2021. The Author(s).)
- Published
- 2021
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21. Combined intermittent fasting and ERK inhibition enhance the anti-tumor effects of chemotherapy via the GSK3β-SIRT7 axis.
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Tang X, Li G, Shi L, Su F, Qian M, Liu Z, Meng Y, Sun S, Li J, and Liu B
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- AMP-Activated Protein Kinase Kinases, Animals, Combined Modality Therapy, Doxorubicin administration & dosage, Female, Glycogen Synthase Kinase 3 beta genetics, Humans, Male, Mice, Mice, Inbred BALB C, Mitogen-Activated Protein Kinase 1 genetics, Mitogen-Activated Protein Kinase 1 metabolism, Neoplasms genetics, Neoplasms metabolism, Phosphorylation, Protein Kinases genetics, Protein Kinases metabolism, Proteolysis, Sirtuins genetics, Fasting metabolism, Glycogen Synthase Kinase 3 beta metabolism, Mitogen-Activated Protein Kinase 1 antagonists & inhibitors, Neoplasms drug therapy, Protein Kinase Inhibitors administration & dosage, Sirtuins metabolism
- Abstract
Dietary interventions such as intermittent fasting (IF) have emerged as an attractive strategy for cancer therapies; therefore, understanding the underlying molecular mechanisms is pivotal. Here, we find SIRT7 decline markedly attenuates the anti-tumor effect of IF. Mechanistically, AMP-activated protein kinase (AMPK) phosphorylating SIRT7 at T263 triggers further phosphorylation at T255/S259 by glycogen synthase kinase 3β (GSK3β), which stabilizes SIRT7 by decoupling E3 ligase UBR5. SIRT7 hyperphosphorylation achieves anti-tumor activity by disrupting the SKP2-SCF E3 ligase, thus preventing SKP2-mediated K63-linked AKT polyubiquitination and subsequent activation. In contrast, GSK3β-SIRT7 axis is inhibited by EGF/ERK2 signaling, with ERK2 inactivating GSK3β, thus accelerating SIRT7 degradation. Unfavorably, glucose deprivation or chemotherapy hijacks the GSK3β-SIRT7 axis via ERK2, thus activating AKT and ensuring survival. Notably, Trametinib, an FDA-approved MEK inhibitor, enhances the efficacy of combination therapy with doxorubicin and IF. Overall, we have revealed the GSK3β-SIRT7 axis that must be fine-tuned in the face of the energetic and oncogenic stresses in malignancy., (© 2021. The Author(s).)
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- 2021
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22. Nitrate-functionalized patch confers cardioprotection and improves heart repair after myocardial infarction via local nitric oxide delivery.
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Zhu D, Hou J, Qian M, Jin D, Hao T, Pan Y, Wang H, Wu S, Liu S, Wang F, Wu L, Zhong Y, Yang Z, Che Y, Shen J, Kong D, Yin M, and Zhao Q
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- Animals, Cardiotonic Agents metabolism, Cardiotonic Agents pharmacology, Disease Models, Animal, Drug Implants pharmacology, Heart drug effects, Heart physiopathology, Macrophage Activation drug effects, Male, Mice, Myocardial Infarction mortality, Myocardial Infarction prevention & control, Myocardial Ischemia metabolism, Myocardial Ischemia prevention & control, Myocardial Reperfusion Injury metabolism, Myocardial Reperfusion Injury prevention & control, RAW 264.7 Cells, Rats, Sprague-Dawley, Survival Rate, Swine, Rats, Drug Implants metabolism, Myocardial Infarction metabolism, Nitrates metabolism, Nitrogen Oxides metabolism
- Abstract
Nitric oxide (NO) is a short-lived signaling molecule that plays a pivotal role in cardiovascular system. Organic nitrates represent a class of NO-donating drugs for treating coronary artery diseases, acting through the vasodilation of systemic vasculature that often leads to adverse effects. Herein, we design a nitrate-functionalized patch, wherein the nitrate pharmacological functional groups are covalently bound to biodegradable polymers, thus transforming small-molecule drugs into therapeutic biomaterials. When implanted onto the myocardium, the patch releases NO locally through a stepwise biotransformation, and NO generation is remarkably enhanced in infarcted myocardium because of the ischemic microenvironment, which gives rise to mitochondrial-targeted cardioprotection as well as enhanced cardiac repair. The therapeutic efficacy is further confirmed in a clinically relevant porcine model of myocardial infarction. All these results support the translational potential of this functional patch for treating ischemic heart disease by therapeutic mechanisms different from conventional organic nitrate drugs., (© 2021. The Author(s).)
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- 2021
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23. A sequential methodology for the rapid identification and characterization of breast cancer-associated functional SNPs.
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Zhao Y, Wu D, Jiang D, Zhang X, Wu T, Cui J, Qian M, Zhao J, Oesterreich S, Sun W, Finkel T, and Li G
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- Adaptor Proteins, Signal Transducing genetics, Blotting, Western, Breast Neoplasms pathology, Cell Line, Tumor, Female, Gene Expression Regulation, Neoplastic, Humans, Linkage Disequilibrium, MAP Kinase Kinase Kinase 1 genetics, MCF-7 Cells, Mass Spectrometry methods, Receptor, Fibroblast Growth Factor, Type 2 genetics, Regulatory Sequences, Nucleic Acid genetics, Breast Neoplasms genetics, Genetic Predisposition to Disease genetics, Genome-Wide Association Study methods, Polymorphism, Single Nucleotide, Sequence Analysis, DNA methods
- Abstract
GWAS cannot identify functional SNPs (fSNP) from disease-associated SNPs in linkage disequilibrium (LD). Here, we report developing three sequential methodologies including Reel-seq (Regulatory element-sequencing) to identify fSNPs in a high-throughput fashion, SDCP-MS (SNP-specific DNA competition pulldown-mass spectrometry) to identify fSNP-bound proteins and AIDP-Wb (allele-imbalanced DNA pulldown-Western blot) to detect allele-specific protein:fSNP binding. We first apply Reel-seq to screen a library containing 4316 breast cancer-associated SNPs and identify 521 candidate fSNPs. As proof of principle, we verify candidate fSNPs on three well-characterized loci: FGFR2, MAP3K1 and BABAM1. Next, using SDCP-MS and AIDP-Wb, we rapidly identify multiple regulatory factors that specifically bind in an allele-imbalanced manner to the fSNPs on the FGFR2 locus. We finally demonstrate that the factors identified by SDCP-MS can regulate risk gene expression. These data suggest that the sequential application of Reel-seq, SDCP-MS, and AIDP-Wb can greatly help to translate large sets of GWAS data into biologically relevant information.
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- 2020
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24. Identification of four novel associations for B-cell acute lymphoblastic leukaemia risk.
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Vijayakrishnan J, Qian M, Studd JB, Yang W, Kinnersley B, Law PJ, Broderick P, Raetz EA, Allan J, Pui CH, Vora A, Evans WE, Moorman A, Yeoh A, Yang W, Li C, Bartram CR, Mullighan CG, Zimmerman M, Hunger SP, Schrappe M, Relling MV, Stanulla M, Loh ML, Houlston RS, and Yang JJ
- Subjects
- Child, Epigenomics, Genome-Wide Association Study, Humans, Precursor B-Cell Lymphoblastic Leukemia-Lymphoma pathology, Risk Factors, Transcriptome, Core Binding Factor Alpha 2 Subunit genetics, Genetic Predisposition to Disease genetics, Oncogene Proteins, Fusion genetics, Polymorphism, Single Nucleotide, Precursor B-Cell Lymphoblastic Leukemia-Lymphoma genetics, RNA-Binding Proteins genetics, bcl-2 Homologous Antagonist-Killer Protein genetics
- Abstract
There is increasing evidence for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children. To identify new risk variants for B-cell ALL (B-ALL) we conducted a meta-analysis with four GWAS (genome-wide association studies), totalling 5321 cases and 16,666 controls of European descent. We herein describe novel risk loci for B-ALL at 9q21.31 (rs76925697, P = 2.11 × 10
-8 ), for high-hyperdiploid ALL at 5q31.1 (rs886285, P = 1.56 × 10-8 ) and 6p21.31 (rs210143 in BAK1, P = 2.21 × 10-8 ), and ETV6-RUNX1 ALL at 17q21.32 (rs10853104 in IGF2BP1, P = 1.82 × 10-8 ). Particularly notable are the pleiotropic effects of the BAK1 variant on multiple haematological malignancies and specific effects of IGF2BP1 on ETV6-RUNX1 ALL evidenced by both germline and somatic genomic analyses. Integration of GWAS signals with transcriptomic/epigenomic profiling and 3D chromatin interaction data for these leukaemia risk loci suggests deregulation of B-cell development and the cell cycle as central mechanisms governing genetic susceptibility to ALL.- Published
- 2019
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25. Targeting SPINK1 in the damaged tumour microenvironment alleviates therapeutic resistance.
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Chen F, Long Q, Fu D, Zhu D, Ji Y, Han L, Zhang B, Xu Q, Liu B, Li Y, Wu S, Yang C, Qian M, Xu J, Liu S, Cao L, Chin YE, Lam EW, Coppé JP, and Sun Y
- Subjects
- Biomarkers metabolism, Cell Line, Tumor, DNA Damage, Humans, NF-kappa B metabolism, Paracrine Communication, Phenotype, Transcriptome, Cellular Senescence, Drug Resistance, Neoplasm, Trypsin Inhibitor, Kazal Pancreatic metabolism, Tumor Microenvironment
- Abstract
Chemotherapy and radiation not only trigger cancer cell apoptosis but also damage stromal cells in the tumour microenvironment (TME), inducing a senescence-associated secretory phenotype (SASP) characterized by chronic secretion of diverse soluble factors. Here we report serine protease inhibitor Kazal type I (SPINK1), a SASP factor produced in human stromal cells after genotoxic treatment. DNA damage causes SPINK1 expression by engaging NF-κB and C/EBP, while paracrine SPINK1 promotes cancer cell aggressiveness particularly chemoresistance. Strikingly, SPINK1 reprograms the expression profile of cancer cells, causing prominent epithelial-endothelial transition (EET), a phenotypic switch mediated by EGFR signaling but hitherto rarely reported for a SASP factor. In vivo, SPINK1 is expressed in the stroma of solid tumours and is routinely detectable in peripheral blood of cancer patients after chemotherapy. Our study substantiates SPINK1 as both a targetable SASP factor and a novel noninvasive biomarker of therapeutically damaged TME for disease control and clinical surveillance.
- Published
- 2018
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26. The senescence-associated secretory phenotype is potentiated by feedforward regulatory mechanisms involving Zscan4 and TAK1.
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Zhang B, Fu D, Xu Q, Cong X, Wu C, Zhong X, Ma Y, Lv Z, Chen F, Han L, Qian M, Chin YE, Lam EW, Chiao P, and Sun Y
- Subjects
- Animals, Breast Neoplasms genetics, Breast Neoplasms metabolism, Breast Neoplasms pathology, Carcinoma, Ductal drug therapy, Carcinoma, Ductal genetics, Carcinoma, Ductal metabolism, Carcinoma, Ductal pathology, Carcinoma, Non-Small-Cell Lung drug therapy, Carcinoma, Non-Small-Cell Lung genetics, Carcinoma, Non-Small-Cell Lung metabolism, Carcinoma, Non-Small-Cell Lung pathology, Cell Line, Cellular Senescence drug effects, DNA-Binding Proteins antagonists & inhibitors, DNA-Binding Proteins metabolism, Epithelial Cells drug effects, Epithelial Cells metabolism, Epithelial Cells pathology, Everolimus pharmacology, Female, Humans, Lactones pharmacology, Lung Neoplasms genetics, Lung Neoplasms metabolism, Lung Neoplasms pathology, MAP Kinase Kinase Kinases antagonists & inhibitors, MAP Kinase Kinase Kinases metabolism, Male, Mammary Glands, Human drug effects, Mammary Glands, Human metabolism, Mammary Glands, Human pathology, Mice, Mice, SCID, Mitoxantrone pharmacology, Phenotype, Prostate drug effects, Prostate metabolism, Prostate pathology, Resorcinols pharmacology, Signal Transduction, Stromal Cells drug effects, Stromal Cells metabolism, Stromal Cells pathology, Transcription Factors antagonists & inhibitors, Transcription Factors metabolism, Xenograft Model Antitumor Assays, Antineoplastic Agents pharmacology, Breast Neoplasms drug therapy, DNA-Binding Proteins genetics, Gene Expression Regulation, Neoplastic, Lung Neoplasms drug therapy, MAP Kinase Kinase Kinases genetics, Transcription Factors genetics
- Abstract
The senescence-associated secretory phenotype (SASP) can be provoked by side effects of therapeutic agents, fueling advanced complications including cancer resistance. However, the intracellular signal network supporting initiation and development of the SASP driven by treatment-induced damage remains unclear. Here we report that the transcription factor Zscan4 is elevated for expression by an ATM-TRAF6-TAK1 axis during the acute DNA damage response and enables a long term SASP in human stromal cells. Further, TAK1 activates p38 and PI3K/Akt/mTOR to support the persistent SASP signaling. As TAK1 is implicated in dual feedforward mechanisms to orchestrate the SASP development, pharmacologically targeting TAK1 deprives cancer cells of resistance acquired from treatment-damaged stromal cells in vitro and substantially promotes tumour regression in vivo. Together, our study reveals a novel network that links functionally critical molecules associated with the SASP development in therapeutic settings, thus opening new avenues to improve clinical outcomes and advance precision medicine.
- Published
- 2018
- Full Text
- View/download PDF
27. SIRT7 antagonizes TGF-β signaling and inhibits breast cancer metastasis.
- Author
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Tang X, Shi L, Xie N, Liu Z, Qian M, Meng F, Xu Q, Zhou M, Cao X, Zhu WG, and Liu B
- Subjects
- Animals, Breast Neoplasms genetics, Breast Neoplasms pathology, Cell Line, Cell Line, Tumor, Down-Regulation, Epithelial-Mesenchymal Transition drug effects, Epithelial-Mesenchymal Transition genetics, Gene Expression Regulation, Neoplastic, HEK293 Cells, Humans, Lung Neoplasms genetics, Lung Neoplasms secondary, Mice, Inbred BALB C, Mice, Nude, Mice, Transgenic, RNA Interference, Signal Transduction, Sirtuins genetics, Smad4 Protein metabolism, Transforming Growth Factor beta pharmacology, Transplantation, Heterologous, Breast Neoplasms metabolism, Lung Neoplasms metabolism, Sirtuins metabolism, Transforming Growth Factor beta metabolism
- Abstract
Distant metastasis is the main cause of breast cancer-related death; however, effective therapeutic strategies targeting metastasis are still scarce. This is largely attributable to the spatiotemporal intratumor heterogeneity during metastasis. Here we show that protein deacetylase SIRT7 is significantly downregulated in breast cancer lung metastases in human and mice, and predicts metastasis-free survival. SIRT7 deficiency promotes breast cancer cell metastasis, while temporal expression of Sirt7 inhibits metastasis in polyomavirus middle T antigen breast cancer model. Mechanistically, SIRT7 deacetylates and promotes SMAD4 degradation mediated by β-TrCP1, and SIRT7 deficiency activates transforming growth factor-β signaling and enhances epithelial-to-mesenchymal transition. Significantly, resveratrol activates SIRT7 deacetylase activity, inhibits breast cancer lung metastases, and increases survival. Our data highlight SIRT7 as a modulator of transforming growth factor-β signaling and suppressor of breast cancer metastasis, meanwhile providing an effective anti-metastatic therapeutic strategy.Metastatic disease is the major reason for breast cancer-related deaths; therefore, a better understanding of this process and its players is needed. Here the authors report the role of SIRT7 in inhibiting SMAD4-mediated breast cancer metastasis providing a possible therapeutic avenue.
- Published
- 2017
- Full Text
- View/download PDF
28. Inherited coding variants at the CDKN2A locus influence susceptibility to acute lymphoblastic leukaemia in children.
- Author
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Xu H, Zhang H, Yang W, Yadav R, Morrison AC, Qian M, Devidas M, Liu Y, Perez-Andreu V, Zhao X, Gastier-Foster JM, Lupo PJ, Neale G, Raetz E, Larsen E, Bowman WP, Carroll WL, Winick N, Williams R, Hansen T, Holm JC, Mardis E, Fulton R, Pui CH, Zhang J, Mullighan CG, Evans WE, Hunger SP, Gupta R, Schmiegelow K, Loh ML, Relling MV, and Yang JJ
- Subjects
- Animals, Case-Control Studies, Child, Cyclin-Dependent Kinase Inhibitor p15 genetics, Cyclin-Dependent Kinase Inhibitor p16 metabolism, DNA-Binding Proteins genetics, Genetic Predisposition to Disease, Genetic Variation, Genome-Wide Association Study, Genotype, Germ-Line Mutation, HEK293 Cells, Hematopoietic Stem Cells metabolism, Humans, Ikaros Transcription Factor genetics, Mice, Mutagenesis, Site-Directed, Mutation, Missense, Precursor B-Cell Lymphoblastic Leukemia-Lymphoma metabolism, Precursor Cell Lymphoblastic Leukemia-Lymphoma genetics, Transcription Factors genetics, Cyclin-Dependent Kinase Inhibitor p16 genetics, Precursor B-Cell Lymphoblastic Leukemia-Lymphoma genetics
- Abstract
There is increasing evidence from genome-wide association studies for a strong inherited genetic basis of susceptibility to acute lymphoblastic leukaemia (ALL) in children, yet the effects of protein-coding variants on ALL risk have not been systematically evaluated. Here we show a missense variant in CDKN2A associated with the development of ALL at genome-wide significance (rs3731249, P=9.4 × 10(-23), odds ratio=2.23). Functional studies indicate that this hypomorphic variant results in reduced tumour suppressor function of p16(INK4A), increases the susceptibility to leukaemic transformation of haematopoietic progenitor cells, and is preferentially retained in ALL tumour cells. Resequencing the CDKN2A-CDKN2B locus in 2,407 childhood ALL cases reveals 19 additional putative functional germline variants. These results provide direct functional evidence for the influence of inherited genetic variation on ALL risk, highlighting the important and complex roles of CDKN2A-CDKN2B tumour suppressors in leukaemogenesis.
- Published
- 2015
- Full Text
- View/download PDF
29. Immunotoxin targeting glypican-3 regresses liver cancer via dual inhibition of Wnt signalling and protein synthesis.
- Author
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Gao W, Tang Z, Zhang YF, Feng M, Qian M, Dimitrov DS, and Ho M
- Subjects
- ADP Ribose Transferases chemistry, ADP Ribose Transferases genetics, ADP Ribose Transferases immunology, Animals, Antibodies, Monoclonal genetics, Antibodies, Monoclonal immunology, Antineoplastic Agents chemistry, Antineoplastic Agents immunology, Bacterial Toxins chemistry, Bacterial Toxins genetics, Bacterial Toxins immunology, Exotoxins chemistry, Exotoxins genetics, Exotoxins immunology, Female, Gene Expression, Glypicans genetics, Glypicans immunology, Hep G2 Cells, Hepatoblastoma genetics, Hepatoblastoma immunology, Hepatoblastoma pathology, Humans, Immunotoxins chemistry, Immunotoxins genetics, Liver drug effects, Liver immunology, Liver pathology, Liver Neoplasms genetics, Liver Neoplasms immunology, Liver Neoplasms pathology, Mice, Molecular Targeted Therapy, Recombinant Fusion Proteins genetics, Recombinant Fusion Proteins immunology, Remission Induction, Signal Transduction, Single-Domain Antibodies genetics, Single-Domain Antibodies immunology, Tumor Burden drug effects, Virulence Factors chemistry, Virulence Factors genetics, Virulence Factors immunology, Wnt Proteins genetics, Wnt Proteins immunology, Xenograft Model Antitumor Assays, Pseudomonas aeruginosa Exotoxin A, Antineoplastic Agents administration & dosage, Glypicans antagonists & inhibitors, Hepatoblastoma drug therapy, Liver Neoplasms drug therapy, Protein Biosynthesis drug effects, Recombinant Fusion Proteins administration & dosage, Wnt Proteins antagonists & inhibitors
- Abstract
Glypican-3 is a cell surface glycoprotein that associates with Wnt in liver cancer. We develop two antibodies targeting glypican-3, HN3 and YP7. The first antibody recognizes a functional epitope and inhibits Wnt signalling, whereas the second antibody recognizes a C-terminal epitope but does not inhibit Wnt signalling. Both are fused to a fragment of Pseudomonas exotoxin A (PE38) to create immunotoxins. Interestingly, the immunotoxin based on HN3 (HN3-PE38) has superior antitumor activity as compared with YP7 (YP7-PE38) both in vitro and in vivo. Intravenous administration of HN3-PE38 alone, or in combination with chemotherapy, induces regression of Hep3B and HepG2 liver tumour xenografts in mice. This study establishes glypican-3 as a promising candidate for immunotoxin-based liver cancer therapy. Our results demonstrate immunotoxin-induced tumour regression via dual mechanisms: inactivation of cancer signalling via the antibody and inhibition of protein synthesis via the toxin.
- Published
- 2015
- Full Text
- View/download PDF
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