280 results on '"Wang GG"'
Search Results
2. A Survey of Learning-Based Intelligent Optimization Algorithms
- Author
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Li, W, Wang, GG, Gandomi, AH, Li, W, Wang, GG, and Gandomi, AH
- Abstract
A large number of intelligent algorithms based on social intelligent behavior have been extensively researched in the past few decades, through the study of natural creatures, and applied to various optimization fields. The learning-based intelligent optimization algorithm (LIOA) refers to an intelligent optimization algorithm with a certain learning ability. This is how the traditional intelligent optimization algorithm combines learning operators or specific learning mechanisms to give itself some learning ability, thereby achieving better optimization behavior. We conduct a comprehensive survey of LIOAs in this paper. The research includes the following sections: Statistical analysis about LIOAs, classification of LIOA learning method, application of LIOAs in complex optimization scenarios, and LIOAs in engineering applications. The future insights and development direction of LIOAs are also discussed.
- Published
- 2021
3. Behavior of crossover operators in NSGA-III for large-scale optimization problems
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Yi, JH, Xing, LN, Wang, GG, Dong, J, Vasilakos, AV, Alavi, AH, Wang, L, Yi, JH, Xing, LN, Wang, GG, Dong, J, Vasilakos, AV, Alavi, AH, and Wang, L
- Abstract
© 2018 Elsevier Inc. Traditional multi-objective optimization evolutionary algorithms (MOEAs) do not usually meet the requirements for online data processing because of their high computational costs. This drawback has resulted in difficulties in the deployment of MOEAs for multi-objective, large-scale optimization problems. Among different evolutionary algorithms, non-dominated sorting genetic algorithm-the third version (NSGA-III) is a fairly new method capable of solving large-scale optimization problems with acceptable computational requirements. In this paper, the performance of three crossover operators of the NSGA-III algorithm is benchmarked using a large-scale optimization problem based on human electroencephalogram (EEG) signal processing. The studied operators are simulated binary (SBX), uniform crossover (UC), and single point (SI) crossovers. Furthermore, enhanced versions of the NSGA-III algorithm are proposed through introducing the concept of Stud and designing several improved crossover operators of SBX, UC, and SI. The performance of the proposed NSGA-III variants is verified on six large-scale optimization problems. Experimental results indicate that the NSGA-III methods with UC and UC-Stud (UCS) outperform the other developed variants.
- Published
- 2020
4. Infective Endocarditic: Analysis of Pathogenic Bacterium and the Clinical Feature in Prosthetic Valve and Native Valve: 10
- Author
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Sun, XL, Guan, J, and Wang, GG
- Published
- 2009
5. Nt-proBNP reflects the Cardiac Index better than LVEF and LVEDd in Patient with Acutely Decompensate Heart Failure: 8
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Mao, Y, Zhang, J, Wang, GG, Zhu, J, and Yang, YJ
- Published
- 2009
6. Study on Clinical Application of a Portable Remote Real-time Electrocardiogram Monitoring System: 2
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Sun, XL, Guan, J, Wang, L, and Wang, GG
- Published
- 2009
7. A comprehensive review of krill herd algorithm: variants, hybrids and applications
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Wang, GG, Gandomi, AH, Alavi, AH, and Gong, D
- Subjects
Artificial Intelligence & Image Processing - Abstract
© 2017, Springer Science+Business Media Dordrecht. Krill herd (KH) is a novel swarm-based metaheuristic optimization algorithm inspired by the krill herding behavior. The objective function in the KH optimization process is based on the least distance between the food location and position of a krill. The KH method has been proven to outperform several state-of-the-art metaheuristic algorithms on many benchmarks and engineering cases. This paper presents a comprehensive review of different versions of the KH algorithm and their engineering applications. The study is divided into the following general parts: KH variants, engineering optimization/application, and theoretical analysis. In addition, specific features of KH and future directions are discussed.
- Published
- 2019
8. Editorial
- Author
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Alavi, AH, Cui, Z, Gandomi, AH, Gao, XZ, Wang, GG, and Lim, MH
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0801 Artificial Intelligence and Image Processing, 0803 Computer Software, 1004 Medical Biotechnology - Published
- 2018
9. A multi-stage krill herd algorithm for global numerical optimization
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Wang, GG, Gandomi, AH, Alavi, AH, and Deb, S
- Subjects
0801 Artificial Intelligence and Image Processing, 0802 Computation Theory and Mathematics, 1702 Cognitive Sciences ,Artificial Intelligence & Image Processing - Abstract
A multi-stage krill herd (MSKH) algorithm is presented to fully exploit the global and local search abilities of the standard krill herd (KH) optimization method. The proposed method involves exploration and exploitation stages. The exploration stage uses the basic KH algorithm to select a good candidate solution set. This phase is followed by fine-tuning a good candidate solution in the exploitation stage with a focused local mutation and crossover (LMC) operator in order to enhance the reliability of the method for solving global numerical optimization problems. Moreover, the elitism scheme is introduced into the MSKH method to guarantee the best solution. The performance of MSKH is verified using twenty-five standard and rotated and shifted benchmark problems. The results show the superiority of the proposed algorithm to the standard KH and other well-known optimization methods.
- Published
- 2016
10. Hybridizing harmony search algorithm with cuckoo search for global numerical optimization
- Author
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Wang, GG, Gandomi, AH, Zhao, X, and Chu, HCE
- Subjects
0102 Applied Mathematics, 0801 Artificial Intelligence and Image Processing, 1702 Cognitive Sciences ,Artificial Intelligence & Image Processing - Abstract
For the purpose of enhancing the search ability of the cuckoo search (CS) algorithm, an improved robust approach, called HS/CS, is put forward to address the optimization problems. In HS/CS method, the pitch adjustment operation in harmony search (HS) that can be considered as a mutation operator is added to the process of the cuckoo updating so as to speed up convergence. Several benchmarks are applied to verify the proposed method and it is demonstrated that, in most cases, HS/CS performs better than the standard CS and other comparative methods. The parameters used in HS/CS are also investigated by various simulations.
- Published
- 2016
11. Effect of catalyst layer defects on local membrane degradation in polymer electrolyte fuel cells
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Tavassoli, A, Lim, C, Kolodziej, J, Lauritzen, M, Knights, S, Wang, GG, Kjeang, E, Tavassoli, A, Lim, C, Kolodziej, J, Lauritzen, M, Knights, S, Wang, GG, and Kjeang, E
- Abstract
© 2016 Elsevier B.V. All rights reserved. Aiming at durability issues of fuel cells, this research is dedicated to a novel experimental approach in the analysis of local membrane degradation phenomena in polymer electrolyte fuel cells, shedding light on the potential effects of manufacturing imperfections on this process. With a comprehensive review on historical failure analysis data from field operated fuel cells, local sources of iron oxide contaminants, catalyst layer cracks, and catalyst layer delamination are considered as potential candidates for initiating or accelerating the local membrane degradation phenomena. Customized membrane electrode assemblies with artificial defects are designed, fabricated, and subjected to membrane accelerated stress tests followed by extensive post-mortem analysis. The results reveal a significant accelerating effect of iron oxide contamination on the global chemical degradation of the membrane, but dismiss local traces of iron oxide as a potential stressor for local membrane degradation. Anode and cathode catalyst layer cracks are observed to have negligible impact on the membrane degradation phenomena. Notably however, distinct evidence is found that anode catalyst layer delamination can accelerate local membrane thinning, while cathode delamination has no apparent effect. Moreover, a substantial mitigating effect for platinum residuals on the site of delamination is observed.
- Published
- 2016
12. Opposition-based krill herd algorithm with Cauchy mutation and position clamping
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Wang, GG, Deb, S, Gandomi, AH, Alavi, AH, Wang, GG, Deb, S, Gandomi, AH, and Alavi, AH
- Abstract
Krill herd (KH) has been proven to be an efficient algorithm for function optimization. For some complex functions, this algorithm may have problems with convergence or being trapped in local minima. To cope with these issues, this paper presents an improved KH-based algorithm, called Opposition Krill Herd (OKH). The proposed approach utilizes opposition-based learning (OBL), position clamping (PC) and Cauchy mutation (CM) to enhance the performance of basic KH. OBL accelerates the convergence of the method while both PC and heavy-tailed CM help KH escape from local optima. Simulations are implemented on an array of benchmark functions and two engineering optimization problems. The results show that OKH has a good performance on majority of the considered functions and two engineering cases. The influence of each individual strategy (OBL, CM and PC) on KH is verified through 25 benchmarks. The results show that the KH with OBL, CM and PC operators, has the best performance among different variants of OKH.
- Published
- 2016
13. A hybrid method based on krill herd and quantum-behaved particle swarm optimization
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Wang, GG, Gandomi, AH, Alavi, AH, Deb, S, Wang, GG, Gandomi, AH, Alavi, AH, and Deb, S
- Abstract
A novel hybrid Krill herd (KH) and quantum-behaved particle swarm optimization (QPSO), called KH–QPSO, is presented for benchmark and engineering optimization. QPSO is intended for enhancing the ability of the local search and increasing the individual diversity in the population. KH–QPSO is capable of avoiding the premature convergence and eventually finding the function minimum; especially, KH–QPSO can make all the individuals proceed to the true global optimum without introducing additional operators to the basic KH and QPSO algorithms. To verify its performance, various experiments are carried out on an array of test problems as well as an engineering case. Based on the results, we can easily infer that the hybrid KH–QPSO is more efficient than other optimization methods for solving standard test problems and engineering optimization problems.
- Published
- 2016
14. Chaotic cuckoo search
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Wang, GG, Deb, S, Gandomi, AH, Zhang, Z, Alavi, AH, Wang, GG, Deb, S, Gandomi, AH, Zhang, Z, and Alavi, AH
- Abstract
This study proposes a novel chaotic cuckoo search (CCS) optimization method by incorporating chaotic theory into cuckoo search (CS) algorithm. In CCS, chaos characteristics are combined with the CS with the intention of further enhancing its performance. Further, the elitism scheme is incorporated into CCS to preserve the best cuckoos. In CCS method, 12 chaotic maps are applied to tune the step size of the cuckoos used in the original CS method. Twenty-seven benchmark functions and an engineering case are utilized to investigate the efficiency of CCS. The results clearly demonstrate that the performance of CCS together with a suitable chaotic map is comparable as well as superior to that of the CS and other metaheuristic algorithms.
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- 2016
15. A novel improved accelerated particle swarm optimization algorithm for global numerical optimization
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Wang, GG, Gandomi, AH, Yang, XS, and Alavi, AH
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0905 Civil Engineering, 0913 Mechanical Engineering, 0915 Interdisciplinary Engineering ,Applied Mathematics - Abstract
Purpose - Meta-heuristic algorithms are efficient in achieving the optimal solution for engineering problems. Hybridization of different algorithms may enhance the quality of the solutions and improve the efficiency of the algorithms. The purpose of this paper is to propose a novel, robust hybrid meta-heuristic optimization approach by adding differential evolution (DE) mutation operator to the accelerated particle swarm optimization (APSO) algorithm to solve numerical optimization problems. Design/methodology/approach - The improvement includes the addition of DE mutation operator to the APSO updating equations so as to speed up convergence. Findings - A new optimization method is proposed by introducing DE-type mutation into APSO, and the hybrid algorithm is called differential evolution accelerated particle swarm optimization (DPSO). The difference between DPSO and APSO is that the mutation operator is employed to fine-tune the newly generated solution for each particle, rather than random walks used in APSO. Originality/value - A novel hybrid method is proposed and used to optimize 51 functions. It is compared with other methods to show its effectiveness. The effect of the DPSO parameters on convergence and performance is also studied and analyzed by detailed parameter sensitivity studies.
- Published
- 2014
16. A new improved krill herd algorithm for global numerical optimization
- Author
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Guo, L, Wang, GG, Gandomi, AH, Alavi, AH, Duan, H, Guo, L, Wang, GG, Gandomi, AH, Alavi, AH, and Duan, H
- Abstract
This study presents an improved krill herd (IKH) approach to solve global optimization problems. The main improvement pertains to the exchange of information between top krill during motion calculation process to generate better candidate solutions. Furthermore, the proposed IKH method uses a new Lévy flight distribution and elitism scheme to update the KH motion calculation. This novel meta-heuristic approach can accelerate the global convergence speed while preserving the robustness of the basic KH algorithm. Besides, the detailed implementation procedure for the IKH method is described. Several standard benchmark functions are used to verify the efficiency of IKH. Based on the results, the performance of IKH is superior to or highly competitive with the standard KH and other robust population-based optimization methods. © 2014 Elsevier B.V.
- Published
- 2014
17. Multigene genetic programming for estimation of elastic modulus of concrete
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Mohammadi Bayazidi, A, Wang, GG, Bolandi, H, Alavi, AH, Gandomi, AH, Mohammadi Bayazidi, A, Wang, GG, Bolandi, H, Alavi, AH, and Gandomi, AH
- Abstract
This paper presents a new multigene genetic programming (MGGP) approach for estimation of elastic modulus of concrete. The MGGP technique models the elastic modulus behavior by integrating the capabilities of standard genetic programming and classical regression. The main aim is to derive precise relationships between the tangent elastic moduli of normal and high strength concrete and the corresponding compressive strength values. Another important contribution of this study is to develop a generalized prediction model for the elastic moduli of both normal and high strength concrete. Numerous concrete compressive strength test results are obtained from the literature to develop the models. A comprehensive comparative study is conducted to verify the performance of the models. The proposed models perform superior to the existing traditional models, as well as those derived using other powerful soft computing tools. © 2014 Alireza Mohammadi Bayazidi et al.
- Published
- 2014
18. Chaotic Krill Herd algorithm
- Author
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Wang, GG, Guo, L, Gandomi, AH, Hao, GS, Wang, H, Wang, GG, Guo, L, Gandomi, AH, Hao, GS, and Wang, H
- Abstract
Recently, Gandomi and Alavi proposed a meta-heuristic optimization algorithm, called Krill Herd (KH). This paper introduces the chaos theory into the KH optimization process with the aim of accelerating its global convergence speed. Various chaotic maps are considered in the proposed chaotic KH (CKH) method to adjust the three main movements of the krill in the optimization process. Several test problems are utilized to evaluate the performance of CKH. The results show that the performance of CKH, with an appropriate chaotic map, is better than or comparable with the KH and other robust optimization approaches. © 2014 Elsevier Inc. All rights reserved.
- Published
- 2014
19. An effective krill herd algorithm with migration operator in biogeography-based optimization
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Wang, GG, Gandomi, AH, Alavi, AH, Wang, GG, Gandomi, AH, and Alavi, AH
- Abstract
Krill herd (KH) is a novel search heuristic method. To improve its performance, a biogeography-based krill herd (BBKH) algorithm is presented for solving complex optimization tasks. The improvement involves introducing a new krill migration (KM) operator when the krill updating to deal with optimization problems more efficiently. The KM operator emphasizes the exploitation and lets the krill cluster around the best solutions at the later run phase of the search. The effects of these enhancements are tested by various well-defined benchmark functions. Based on the experimental results, this novel BBKH approach performs better than the basic KH and other optimization algorithms. © 2013 Elsevier Inc.
- Published
- 2014
20. Site-specific height curves for white spruce (Picea glauca [Moench] Voss) stands based on stem analysis and site classification
- Author
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Wang, Gg, Klinka, K, and Revues Inra, Import
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[SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry ,ComputingMilieux_MISCELLANEOUS - Published
- 1995
21. Hollow spheres based on mesostructured lead titanate with amorphous framework
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Wu, MM, Wang, GG, Xu, HF, Long, JB, Shek, FLY, Lo, SMF, Williams, ID, Feng, SH, Xu, RR, Wu, MM, Wang, GG, Xu, HF, Long, JB, Shek, FLY, Lo, SMF, Williams, ID, Feng, SH, and Xu, RR
- Abstract
Hollow spheres of mesostructured lead titanate, denoted as PTM-1, have been prepared via a combined oil-in-water emulsion mediated and neutral amine supermolecular templated route. The variety of reaction temperatures and KOH concentrations indicates hollow spheres can be formed under a very critical condition. The structure and composition of the as-synthesized PTM-1 have been determined by powder X-ray diffraction, high-resolution transmission electron microscopy (HRTEM), energy-dispersive X-ray spectroscopy (EDS), CHN (carbon-hydrogen-nitrogen) elemental analysis, and thermal analysis. Chemical extraction of organic templates by a cosolvent of weak acid and alcohol has resulted in the formation of a new mesoporous material of non-silica oxide with high porosity.
- Published
- 2003
22. Site-specific height curves for white spruce (Picea glauca [Moench] Voss) stands based on stem analysis and site classification
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Wang, GG, primary and Klinka, K, additional
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- 1995
- Full Text
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23. Strong, tough, and freeze-tolerant all-natural cellulose-based ionic conductor enabled by multiscale cellulose networks.
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Wu D, Wang M, Yu W, Wang GG, and Zhang J
- Abstract
Soft ionic conductors are widely used in flexible electronics. However, the simultaneous enhancement of their mechanical properties and ionic conductivity remains challenging. This paper reports the successful development of a strong and tough cellulose-based ionic conductor with exceptional mechanical properties and high ionic conductivity by in situ dissolution and reorganization of the fiber matrix of filter paper to create a multiscale structure. The resulting ionic conductor exhibits a fracture strength of 14.13 MPa and a fracture energy of up to 2.84 MJ/m
3 , exceeding most reported ionic conductors. It also exhibits an impressive ionic conductivity of up to 76.3 mS/cm. Results of experiments on its use in a flexible quasi-solid-state zinc-hybrid supercapacitor show its remarkable features, such as a high capacity of 218 mAh/g, an energy density of 217 Wh/kg, and a power density of 17,520 W/kg. Furthermore, it exhibits excellent temperature resistance, working effectively even at -60 °C. In addition, by incorporating kirigami structures, we fabricated a strain sensor with the cellulose-based ionic conductor with a high gauge factor, as well as a piezoresistive sensor for handwriting recognition and a capacitance pressure sensor for force mapping with wide range and sensitivity. This study opens up new possibilities for fabricating flexible electronics with superior performance using sustainable and renewable resources., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024. Published by Elsevier Ltd.)- Published
- 2024
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24. The role of lncRNA TSIX in osteoarthritis pathogenesis: mechanistic insights and clinical biomarker potential.
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Dong L, Ji F, Guo XQ, Wang GG, and Xie J
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- Humans, Male, Female, Middle Aged, Chondrocytes metabolism, Interleukin-1beta metabolism, Apoptosis genetics, Aged, Disease Progression, PTEN Phosphohydrolase genetics, PTEN Phosphohydrolase metabolism, Gene Expression genetics, Cell Survival genetics, RNA, Long Noncoding genetics, MicroRNAs genetics, Biomarkers metabolism, Osteoarthritis genetics, Osteoarthritis metabolism
- Abstract
Background: This study seeks to elucidate the expressions of lncRNA TSIX in Osteoarthritis (OA) and to explore its mechanisms in regulating OA progression., Methods: RT-qPCR was employed to analyze the expression of TSIX in OA patients classified by Kellgren-Lawrence (K-L) grades. Receiver operator characteristic (ROC) was conducted to evaluate the diagnostic value of TSIX. Correlation between TSIX levels and clinical scores such as Lysholm and visual analogue scale (VAS) score was evaluated using Pearson method. IL-1β-induced SW1353 cells served as an in vitro model. The cell function were assessed by flow cytometry and cell counting kit-8 (CCK-8) assay. The relationship between TSIX and miR-320a was verified by luciferase reporting system, while bioinformatics approaches were utilized to predict the downstream target genes of miR-320a., Results: The findings revealed that TSIX level in OA patients was elevated compared to that of the control group, with a notable progressive increase in TSIX expression correlated with higher K-L grades. In OA patients, the Lysholm score showed a negative correlation with TSIX expression, while the VAS score displayed a positive correlation with TSIX levels. Cell studies demonstrated that inhibition of TSIX enhanced cell viability and mitigated IL-1β-induced apoptosis by targeting miR-320a, in addition to promoting Aggrecan and Collagen II secretion. Luciferase reporter assay further validated the targeting interaction among TSIX, miR-320a, and PTEN., Conclusions: This study demonstrated an increased expression of TSIX in OA patients. It suggests that TSIX may play a role in chondrocyte dysfunction during OA by modulating the miR-320a/PTEN axis., (© 2024. The Author(s).)
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- 2024
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25. Hemin attenuates bleomycin-induced lung fibrosis in mice by regulating the TGF-β1/MAPK and AMPK/SIRT1/PGC-1α/HO-1/NF-κB pathways.
- Author
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Hao W, Yu TT, Li W, Wang GG, Hu HX, and Zhou PP
- Abstract
The objective of this study was to investigate the protective effect and potential mechanism of action of hemin on bleomycin-induced pulmonary fibrosis in mice. Male C57BL/6 mice were randomly divided into control, bleomycin and bleomycin + hemin groups. Mice in the bleomycin and bleomycin + hemin groups were injected intratracheally with bleomycin to establish the pulmonary fibrosis model. The bleomycin + hemin group mice were injected intraperitoneally with hemin starting 7 days before modeling until the end of Day 21 after modeling. Pathological changes in lung tissue were assessed by HE and Masson staining. Malondialdehyde (MDA), superoxide dismutase (SOD) and catalase (CAT) levels were determined in lung tissue. Immunohistochemistry was performed to assess the expression of α-SMA and collagen I. The serum levels of IL-6 and TNF-α were measured via ELISA. Western blotting was used to determine the expression of TGF-β1, SIRT1, PGC-1α and HO-1 and the phosphorylation levels of p38, ERK1/2, JNK, AMPK and NF-κB p65 in lung tissue. Hemin significantly reduced lung indices, increased terminal body weight. It also significantly increased SOD and CAT activities; decreased MDA, IL-6 and TNF-α levels; reduced the levels of α-SMA and collagen I-positive cells; upregulated SIRT1, PGC-1α and HO-1 expression; promoted AMPK phosphorylation; and downregulated TGF-β1 expression and p38, ERK1/2, JNK and NF-κB p65 phosphorylation. Hemin might attenuate oxidative damage and inflammatory responses and reduces extracellular matrix deposition by regulating the expression and phosphorylation of proteins associated with the TGF-β1/MAPK and AMPK/SIRT1/PGC-1α/HO-1/NF-κB pathways, thereby alleviating bleomycin-induced pulmonary fibrosis.
- Published
- 2024
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26. Thermal Ablation of Pulmonary Nodules by Electromagnetic Navigation Bronchoscopy Combined With Real-Time CT-Based 3D Fusion Navigation:Report of One Case.
- Author
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Xu Y, Liu Q, Guo C, Wang YB, Wu XF, Ma CX, Wang GG, Liu QS, Liang NX, and Li SQ
- Abstract
A nodule in the right middle lobe of the lung was treated by a combination of cone-beam CT,three-dimensional registration for fusion imaging,and electromagnetic navigation bronchoscopy-guided thermal ablation.The procedure lasted for 90 min,with no significant bleeding observed under the bronchoscope.The total radiation dose during the operation was 384 mGy.The patient recovered well postoperatively,with only a small amount of blood in the sputum and no pneumothorax or other complications.A follow-up chest CT on the first day post operation showed that the ablation area completely covered the lesion,and the patient was discharged successfully.
- Published
- 2024
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27. LINC01133 promotes the osteogenic differentiation of bone marrow mesenchymal stem cells by upregulating CTNNB1 by acting as a sponge for miR-214-3p.
- Author
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Tang C, Huang L, Guo XQ, Wang GG, and Chen Z
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- Humans, Cells, Cultured, Female, Middle Aged, Male, Apoptosis genetics, Bone Marrow Cells metabolism, MicroRNAs genetics, MicroRNAs metabolism, Mesenchymal Stem Cells metabolism, Osteogenesis genetics, Osteogenesis physiology, Cell Differentiation genetics, RNA, Long Noncoding genetics, beta Catenin genetics, beta Catenin metabolism, Osteoporosis genetics, Osteoporosis metabolism, Osteoporosis pathology, Up-Regulation
- Abstract
Background: Osteoporosis results from decreased bone mass and disturbed bone structure. Human bone marrow mesenchymal stem cells (hBMSCs) demonstrate robust osteogenic differentiation, a critical process for bone formation. This research was designed to examine the functions of LINC01133 in osteogenic differentiation., Methods: Differentially expressed lncRNAs affecting osteogenic differentiation in hBMSCs were identified from the GEO database. A total of 74 osteoporosis patients and 70 controls were enrolled. hBMSCs were stimulated to undergo osteogenic differentiation using an osteogenic differentiation medium (OM). RT-qPCR was performed to evaluate LINC01133 levels and osteogenesis-related genes such as osteocalcin, osteopontin, and RUNX2. An alkaline phosphates (ALP) activity assay was conducted to assess osteogenic differentiation. Cell apoptosis was detected using flow cytometry. Dual luciferase reporter assay and RIP assay were employed to investigate the association between miR-214-3p and LINC01133 or CTNNB1. Loss or gain of function assays were conducted to elucidate the impact of LINC01133 and miR-214-3p on osteogenic differentiation of hBMSCs., Results: LINC01133 and CTNNB1 expression decreased in osteoporotic patients but increased in OM-cultured hBMSCs, whereas miR-214-3p showed an opposite trend. Depletion of LINC01133 suppressed the expression of genes associated with bone formation and ALP activity triggered by OM in hBMSCs, leading to increased cell apoptosis. Nevertheless, this suppression was partially counteracted by the reduced miR-214-3p levels. Mechanistically, LINC01133 and CTNNB1 were identified as direct targets of miR-214-3p., Conclusions: Our study highlights the role of LINC01133 in positively regulating CTNNB1 expression by inhibiting miR-214-3p, thereby promoting osteogenic differentiation of BMSCs. These findings may provide valuable insights into bone regeneration in osteoporosis., (© 2024. The Author(s).)
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- 2024
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28. EZH2 PROTACs target EZH2- and FOXM1-associated oncogenic nodes, suppressing breast cancer cell growth.
- Author
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Corbin J, Yu X, Jin J, Cai L, and Wang GG
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- Humans, Female, Cell Line, Tumor, Proteolysis drug effects, Gene Expression Regulation, Neoplastic drug effects, Tamoxifen pharmacology, Drug Resistance, Neoplasm drug effects, Animals, Mice, Proteolysis Targeting Chimera, Enhancer of Zeste Homolog 2 Protein metabolism, Enhancer of Zeste Homolog 2 Protein antagonists & inhibitors, Forkhead Box Protein M1 metabolism, Forkhead Box Protein M1 genetics, Breast Neoplasms drug therapy, Breast Neoplasms pathology, Breast Neoplasms metabolism, Breast Neoplasms genetics, Cell Proliferation drug effects
- Abstract
Breast cancer (BC) remains the second leading cause of cancer-related mortalities in women. Resistance to hormone therapies such as tamoxifen, an estrogen receptor (ER) inhibitor, is a major hurdle in the treatment of BC. Enhancer of zeste homolog 2 (EZH2), the methyltransferase component of the Polycomb repressive complex 2 (PRC2), has been implicated in tamoxifen resistance. Evidence suggests that EZH2 often functions noncanonically, in a methyltransferase-independent manner, as a transcription coactivator through interacting with oncogenic transcription factors. Unlike methyltransferase inhibitors, proteolysis targeting chimeras (PROTAC) can suppress both activating and repressive functions of EZH2. Here, we find that EZH2 PROTACs, MS177 and MS8815, effectively inhibited the growth of BC cells, including those with acquired tamoxifen resistance, to a much greater degree when compared to methyltransferase inhibitors. Mechanistically, EZH2 associates with forkhead box M1 (FOXM1) and binds to the promoters of FOXM1 target genes. EZH2 PROTACs induce degradation of both EZH2 and FOXM1, leading to reduced expression of target genes involved in cell cycle progression and tamoxifen resistance. Together, this study supports that EZH2-targeted PROTACs represent a promising avenue of research for the future treatment of BC, including in the setting of tamoxifen resistance., (© 2024. The Author(s), under exclusive licence to Springer Nature Limited.)
- Published
- 2024
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29. Structural basis for the H2AK119ub1-specific DNMT3A-nucleosome interaction.
- Author
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Chen X, Guo Y, Zhao T, Lu J, Fang J, Wang Y, Wang GG, and Song J
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- Humans, Protein Binding, Cryoelectron Microscopy, Animals, Mice, Ubiquitination, Polycomb Repressive Complex 2 metabolism, Polycomb Repressive Complex 2 chemistry, Polycomb Repressive Complex 2 genetics, HEK293 Cells, Models, Molecular, Nucleosomes metabolism, Nucleosomes ultrastructure, DNA Methyltransferase 3A, DNA (Cytosine-5-)-Methyltransferases metabolism, DNA (Cytosine-5-)-Methyltransferases chemistry, DNA (Cytosine-5-)-Methyltransferases genetics, Histones metabolism, DNA Methylation
- Abstract
Isoform 1 of DNA methyltransferase DNMT3A (DNMT3A1) specifically recognizes nucleosome monoubiquitylated at histone H2A lysine-119 (H2AK119ub1) for establishment of DNA methylation. Mis-regulation of this process may cause aberrant DNA methylation and pathogenesis. However, the molecular basis underlying DNMT3A1-nucleosome interaction remains elusive. Here we report the cryo-EM structure of DNMT3A1's ubiquitin-dependent recruitment (UDR) fragment complexed with H2AK119ub1-modified nucleosome. DNMT3A1 UDR occupies an extensive nucleosome surface, involving the H2A-H2B acidic patch, a surface groove formed by H2A and H3, nucleosomal DNA, and H2AK119ub1. The DNMT3A1 UDR's interaction with H2AK119ub1 affects the functionality of DNMT3A1 in cells in a context-dependent manner. Our structural and biochemical analysis also reveals competition between DNMT3A1 and JARID2, a cofactor of polycomb repression complex 2 (PRC2), for nucleosome binding, suggesting the interplay between different epigenetic pathways. Together, this study reports a molecular basis for H2AK119ub1-dependent DNMT3A1-nucleosome association, with important implications in DNMT3A1-mediated DNA methylation in development., (© 2024. The Author(s).)
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- 2024
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30. Physics-Informed Online Learning for Temperature Prediction in Metal AM.
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Sajadi P, Rahmani Dehaghani M, Tang Y, and Wang GG
- Abstract
In metal additive manufacturing (AM), precise temperature field prediction is crucial for process monitoring, automation, control, and optimization. Traditional methods, primarily offline and data-driven, struggle with adapting to real-time changes and new process scenarios, which limits their applicability for effective AM process control. To address these challenges, this paper introduces the first physics-informed (PI) online learning framework specifically designed for temperature prediction in metal AM. Utilizing a physics-informed neural network (PINN), this framework integrates a neural network architecture with physics-informed inputs and loss functions. Pretrained on a known process to establish a baseline, the PINN transitions to an online learning phase, dynamically updating its weights in response to new, unseen data. This adaptation allows the model to continuously refine its predictions in real-time. By integrating physics-informed components, the PINN leverages prior knowledge about the manufacturing processes, enabling rapid adjustments to process parameters, geometries, deposition patterns, and materials. Empirical results confirm the robust performance of this PI online learning framework in accurately predicting temperature fields for unseen processes across various conditions. It notably surpasses traditional data-driven models, especially in critical areas like the Heat Affected Zone (HAZ) and melt pool. The PINN's use of physical laws and prior knowledge not only provides a significant advantage over conventional models but also ensures more accurate predictions under diverse conditions. Furthermore, our analysis of key hyperparameters-the learning rate and batch size of the online learning phase-highlights their roles in optimizing the learning process and enhancing the framework's overall effectiveness. This approach demonstrates significant potential to improve the online control and optimization of metal AM processes.
- Published
- 2024
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31. MicroRNA 98-5p Overexpression Contributes to Delayed Fracture Healing via Targeting BMP-2.
- Author
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Zhang YB, Guo XQ, Wang GG, and Pu HB
- Subjects
- Aged, Animals, Female, Humans, Male, Mice, Middle Aged, Base Sequence, Cell Differentiation genetics, Cell Line, Femoral Neck Fractures metabolism, Femoral Neck Fractures genetics, Apoptosis genetics, Bone Morphogenetic Protein 2 metabolism, Bone Morphogenetic Protein 2 genetics, Cell Proliferation, Fracture Healing genetics, MicroRNAs genetics, MicroRNAs metabolism
- Abstract
MicroRNAs (miRNAs) are related to the regulation of bone metabolism. Delayed fracture healing (DFH) is a common complication after fracture surgery. The study attempted to examine the role of miR-98-5p and bone morphogenetic protein (BMP)-2 with the onset of DFH. A total of 140 patients with femoral neck fracture were recruited, including 80 cases with normal fracture healing (NFH) and 60 cases with DFH. MC3T3-E1 cells were induced cell differentiation for cell function experiments. Real-time quantitative polymerase chain reaction (RT-qPCR) was carried out to test mRNA levels. Cell proliferation and apoptosis were determined via CCK-8 and flow cytometry assay. Luciferase reporter assay was done to verify the targeted regulatory relationship of miR-98-5p with BMP-2. In comparison with NFH cases, DFH patients owned high levels of serum miR-98-5p and low concentration of BMP-2, and the levels of the two indexes are significantly negatively correlated. Both miR-98-5p and BMP-2 had the ability to predict DFH, while their combined diagnostic value is the highest. BMP-2 was demonstrated to be the target gene of miR-98-5p. Overexpression of BMP-2 reversed the role of miR-98-5p in MC3T3-E1 cell proliferation, apoptosis and differentiation. Increased miR-98-5p and decreased BMP-2 serve as potential biomarkers for the diagnosis of DFH. MiR-98-5p overexpression inhibits osteoblast proliferation and differentiation via targeting BMP-2.
- Published
- 2024
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32. TAF2, within the TFIID complex, regulates the expression of a subset of protein-coding genes.
- Author
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Cheng IH, Pi WC, Hsu CH, Guo Y, Lai JL, Wang GG, Chung BC, Roeder RG, and Chen WY
- Abstract
TFIID, one of the general transcription factor (GTF), regulates transcriptional initiation of protein-coding genes through direct binding to promoter elements and subsequent recruitment of other GTFs and RNA polymerase II. Although generally required for most protein-coding genes, accumulated studies have also demonstrated promoter-specific functions for several TFIID subunits in gene activation. Here, we report that TBP-associated factor 2 (TAF2) specifically regulates TFIID binding to a small subset of protein-coding genes and is essential for cell growth of multiple cancer lines. Co-immunoprecipitation assays revealed that TAF2 may be sub-stoichiometrically associated with the TFIID complex, thus indicating a minor fraction of TAF2-containing TFIID in cells. Consistently, integrated genome-wide profiles show that TAF2 binds to and regulates only a small subset of protein-coding genes. Furthermore, through the use of an inducible TAF2 degradation system, our results reveal a reduction of TBP/TFIID binding to several ribosomal genes upon selective ablation of TAF2. In addition, depletion of TAF2, as well as the TAF2-regulated ribosomal protein genes RPL30 and RPL39, decreases ribosome assembly and global protein translation. Collectively, this study suggests that TAF2 within the TFIID complex is of functional importance for TBP/TFIID binding to and expression of a small subset of protein-coding genes, thus establishing a previously unappreciated promoter-selective function for TAF2., (© 2024. The Author(s).)
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- 2024
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33. Climate warming accelerates carbon release from foliar litter-A global synthesis.
- Author
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Chen Z, Ni X, Patoine G, Peng C, Yue K, Yuan J, Wu Q, Eisenhauer N, Guerra CA, Bol R, Wu F, and Wang GG
- Subjects
- Carbon Cycle, Forests, Carbon Dioxide metabolism, Carbon Dioxide analysis, Global Warming, Trees metabolism, Plant Leaves metabolism, Climate Change, Carbon metabolism
- Abstract
With over one-third of terrestrial net primary productivity transferring to the litter layer annually, the carbon release from litter serves as a crucial valve in atmospheric carbon dioxide concentrations. However, few quantitative global projections of litter carbon release rate in response to climate change exist. Here, we combined a global foliar litter carbon release dataset (8973 samples) to generate spatially explicitly estimates of the response of their residence time (τ) to climate change. Results show a global mean litter carbon release rate ( k $$ k $$ ) of 0.69 year
-1 (ranging from 0.09-5.6 year-1 ). Under future climate scenarios, global mean τ is projected to decrease by a mean of 2.7% (SSP 1-2.6) and 5.9% (SSP 5-8.5) during 2071-2100 period. Locally, the alleviation of temperature and moisture restrictions corresponded to obvious decreases in τ in cold and arid regions, respectively. In contract, τ in tropical humid broadleaf forests increased by 4.6% under SSP 5-8.5. Our findings highlight the vegetation type as a powerful proxy for explaining global patterns in foliar litter carbon release rates and the role of climate conditions in predicting responses of carbon release to climate change. Our observation-based estimates could refine carbon cycle parameterization, improving projections of carbon cycle-climate feedbacks., (© 2024 John Wiley & Sons Ltd.)- Published
- 2024
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34. Structure-guided functional suppression of AML-associated DNMT3A hotspot mutations.
- Author
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Lu J, Guo Y, Yin J, Chen J, Wang Y, Wang GG, and Song J
- Subjects
- Humans, DNA Methyltransferase 3A, Mutation, DNA Methylation genetics, DNA metabolism, DNA (Cytosine-5-)-Methyltransferases metabolism, Leukemia, Myeloid, Acute genetics, Leukemia, Myeloid, Acute pathology
- Abstract
DNA methyltransferases DNMT3A- and DNMT3B-mediated DNA methylation critically regulate epigenomic and transcriptomic patterning during development. The hotspot DNMT3A mutations at the site of Arg822 (R882) promote polymerization, leading to aberrant DNA methylation that may contribute to the pathogenesis of acute myeloid leukemia (AML). However, the molecular basis underlying the mutation-induced functional misregulation of DNMT3A remains unclear. Here, we report the crystal structures of the DNMT3A methyltransferase domain, revealing a molecular basis for its oligomerization behavior distinct to DNMT3B, and the enhanced intermolecular contacts caused by the R882H or R882C mutation. Our biochemical, cellular, and genomic DNA methylation analyses demonstrate that introducing the DNMT3B-converting mutations inhibits the R882H-/R882C-triggered DNMT3A polymerization and enhances substrate access, thereby eliminating the dominant-negative effect of the DNMT3A R882 mutations in cells. Together, this study provides mechanistic insights into DNMT3A R882 mutations-triggered aberrant oligomerization and DNA hypomethylation in AML, with important implications in cancer therapy., (© 2024. The Author(s).)
- Published
- 2024
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35. Efficient Carrier Transport in 2D Bi 2 O 2 Se/CsBi 3 I 10 Perovskite Heterojunction Enables Highly-Sensitive Broadband Photodetection.
- Author
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Dang LY, Wei Z, Guo J, Cui TH, Wang Y, Han JC, and Wang GG
- Abstract
2D Bi
2 O2 Se has recently garnered significant attention in the electronics and optoelectronics fields due to its remarkable photosensitivity, broad spectral absorption, and excellent long-term environmental stability. However, the development of integrated Bi2 O2 Se photodetector with high performance and low-power consumption is limited by material synthesis method and the inherent high carrier concentration of Bi2 O2 Se. Here, a type-I heterojunction is presented, comprising 2D Bi2 O2 Se and lead-free bismuth perovskite CsBi3 I10 , for fast response and broadband detection. Through effective charge transfer and strong coupling effect at the interfaces of Bi2 O2 Se and CsBi3 I10 , the response time is accelerated to 4.1 µs, and the detection range is expanded from ultraviolet to near-infrared spectral regions (365-1500 nm). The as-fabricated photodetector exhibits a responsivity of 48.63 AW-1 and a detectivity of 1.22×1012 Jones at 808 nm. Moreover, efficient modulation of the dominant photocurrent generation mechanism from photoconductive to photogating effect leads to sensitive response exceeding 103 AW-1 for heterojunction-based photo field effect transistor (photo-FETs). Utilizing the large-scale growth of both Bi2 O2 Se and CsBi3 I10 , the as-fabricated integrated photodetector array demonstrates outstanding homogeneity and stability of photo-response performance. The proposed 2D Bi2 O2 Se/CsBi3 I10 perovskite heterojunction holds promising prospects for the future-generation photodetector arrays and integrated optoelectronic systems., (© 2023 Wiley‐VCH GmbH.)- Published
- 2024
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36. Medical image identification methods: A review.
- Author
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Li J, Jiang P, An Q, Wang GG, and Kong HF
- Subjects
- Algorithms, Image Processing, Computer-Assisted methods, Machine Learning, Neural Networks, Computer, Diagnostic Imaging methods
- Abstract
The identification of medical images is an essential task in computer-aided diagnosis, medical image retrieval and mining. Medical image data mainly include electronic health record data and gene information data, etc. Although intelligent imaging provided a good scheme for medical image analysis over traditional methods that rely on the handcrafted features, it remains challenging due to the diversity of imaging modalities and clinical pathologies. Many medical image identification methods provide a good scheme for medical image analysis. The concepts pertinent of methods, such as the machine learning, deep learning, convolutional neural networks, transfer learning, and other image processing technologies for medical image are analyzed and summarized in this paper. We reviewed these recent studies to provide a comprehensive overview of applying these methods in various medical image analysis tasks, such as object detection, image classification, image registration, segmentation, and other tasks. Especially, we emphasized the latest progress and contributions of different methods in medical image analysis, which are summarized base on different application scenarios, including classification, segmentation, detection, and image registration. In addition, the applications of different methods are summarized in different application area, such as pulmonary, brain, digital pathology, brain, skin, lung, renal, breast, neuromyelitis, vertebrae, and musculoskeletal, etc. Critical discussion of open challenges and directions for future research are finally summarized. Especially, excellent algorithms in computer vision, natural language processing, and unmanned driving will be applied to medical image recognition in the future., Competing Interests: Declaration of Competing interest All the authors declare that there is no conflict of interests regarding the publication of this article., (Copyright © 2023 Elsevier Ltd. All rights reserved.)
- Published
- 2024
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37. Deletion of protein kinase C θ attenuates hepatic ischemia/reperfusion injury and further elucidates its mechanism in pathophysiology.
- Author
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Li W, Shen MY, Liu RB, Zhang JY, Li RY, and Wang GG
- Abstract
Objectives: Hepatic ischemia-reperfusion (HIR) is a severe process in pathophysiology that occurs clinically in hepatectomy, and hepatic transplantations. The present study aimed to investigate the effect of PKC θ deletion against HIR injury and elucidate its mechanism in pathophysiology., Materials and Methods: HIR injury was induced in wild-type and PKC θ deletion mice treated with or without heme. The ALT and AST levels were determined to evaluate liver function. HIR injury was observed via histological examination. Oxidative stress and inflammatory response markers, and their signaling pathways were detected., Results: The study found that PKC θ knockout decreased serum AST and ALT levels when compared to the WT mice. Furthermore, heme treatment significantly reduced the ALT and AST levels of the PKC θ deletion mice compared with the untreated PKC θ deletion mice. PKC θ deletion markedly elevated superoxide dismutase activity in the liver tissue, reduced malondialdehyde content in the tissue, and the serum TNF-α and IL-6 levels compared with the WT mice. Heme treatment was observed to elevate the activity of SOD and reduced MDA content and serum of TNF-α and IL 6 in the PKC θ deletion animals. Meanwhile, heme treatment increased HO-1 and Nrf 2 protein expression, and reduced the levels of TLR4, phosphorylated NF-κB, and IKB-α., Conclusion: These findings suggested that PKC θ deletion ameliorates HIR, and heme treatment further improves HIR, which is related to regulation of PKC θ deletion on Nrf 2/HO-1 and TLR4/NF-κB/IKB α pathway., Competing Interests: All authors declare that there are no conflicts of interest in the present manuscript.
- Published
- 2024
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38. A dual-population multi-objective evolutionary algorithm driven by generative adversarial networks for benchmarking and protein-peptide docking.
- Author
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Cheng H, Wang GG, Chen L, and Wang R
- Subjects
- Proteins, Machine Learning, Peptides, Benchmarking, Algorithms
- Abstract
Multi-objective optimization problems (MOPs) are characterized as optimization problems in which multiple conflicting objective functions are optimized simultaneously. To solve MOPs, some algorithms used machine learning models to drive the evolutionary algorithms, leading to the design of a variety of model-based evolutionary algorithms. However, model collapse occurs during the generation of candidate solutions, which results in local optima and poor diversity in model-based evolutionary algorithms. To address this problem, we propose a dual-population multi-objective evolutionary algorithm driven by Wasserstein generative adversarial network with gradient penalty (DGMOEA), where the dual-populations coordinate and cooperate to generate high-quality solutions, thus improving the performance of the evolutionary algorithm. We compare the proposed algorithm with the 7 state-of-the-art algorithms on 20 multi-objective benchmark functions. Experimental results indicate that DGMOEA achieves significant results in solving MOPs, where the metrics IGD and HV outperform the other comparative algorithms on 15 and 18 out of 20 benchmarks, respectively. Our algorithm is evaluated on the LEADS-PEP dataset containing 53 protein-peptide complexes, and the experimental results on solving the protein-peptide docking problem indicated that DGMOEA can effectively reduce the RMSD between the generated and the original peptide's 3D poses and achieve more competitive results., Competing Interests: Declaration of competing interest No conflict of interest exits in the submission of this manuscript, and manuscript is approved by all authors for publication., (Copyright © 2023 Elsevier Ltd. All rights reserved.)
- Published
- 2024
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39. Discovery of Potent and Selective WDR5 Proteolysis Targeting Chimeras as Potential Therapeutics for Pancreatic Cancer.
- Author
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Yu X, Li D, Kottur J, Kim HS, Herring LE, Yu Y, Xie L, Hu X, Chen X, Cai L, Liu J, Aggarwal AK, Wang GG, and Jin J
- Subjects
- Animals, Mice, Proteolysis, Structure-Activity Relationship, Ubiquitin-Protein Ligases metabolism, Proteolysis Targeting Chimera, Pancreatic Neoplasms drug therapy
- Abstract
As a core chromatin-regulatory scaffolding protein, WDR5 mediates numerous protein-protein interactions (PPIs) with other partner oncoproteins. However, small-molecule inhibitors that block these PPIs exert limited cell-killing effects. Here, we report structure-activity relationship studies in pancreatic ductal adenocarcinoma (PDAC) cells that led to the discovery of several WDR5 proteolysis-targeting chimer (PROTAC) degraders, including 11 (MS132), a highly potent and selective von Hippel-Lindau (VHL)-recruiting WDR5 degrader, which displayed positive binding cooperativity between WDR5 and VHL, effectively inhibited proliferation in PDAC cells, and was bioavailable in mice and 25 , a cereblon (CRBN)-recruiting WDR5 degrader, which selectively degraded WDR5 over the CRBN neo-substrate IKZF1. Furthermore, by conducting site-directed mutagenesis studies, we determined that WDR5 K296, but not K32, was involved in the PROTAC-induced WDR5 degradation. Collectively, these studies resulted in a highly effective WDR5 degrader, which could be a potential therapeutic for pancreatic cancer and several potentially useful tool compounds.
- Published
- 2023
- Full Text
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40. Through the lens of phase separation: intrinsically unstructured protein and chromatin looping.
- Author
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Cai L and Wang GG
- Subjects
- Chromatin, Intrinsically Disordered Proteins chemistry, Intrinsically Disordered Proteins genetics, Intrinsically Disordered Proteins metabolism
- Abstract
The establishment, maintenance and dynamic regulation of three-dimensional (3D) chromatin structures provide an important means for partitioning of genome into functionally distinctive domains, which helps to define specialized gene expression programs associated with developmental stages and cell types. Increasing evidence supports critical roles for intrinsically disordered regions (IDRs) harbored within transcription factors (TFs) and chromatin-modulatory proteins in inducing phase separation, a phenomenon of forming membrane-less condensates through partitioning of biomolecules. Such a process is also critically involved in the establishment of high-order chromatin structures and looping. IDR- and phase separation-driven 3D genome (re)organization often goes wrong in disease such as cancer. This review discusses about recent advances in understanding how phase separation of intrinsically disordered proteins (IDPs) modulates chromatin looping and gene expression.
- Published
- 2023
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41. TNRC18 engages H3K9me3 to mediate silencing of endogenous retrotransposons.
- Author
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Zhao S, Lu J, Pan B, Fan H, Byrum SD, Xu C, Kim A, Guo Y, Kanchi KL, Gong W, Sun T, Storey AJ, Burkholder NT, Mackintosh SG, Kuhlers PC, Edmondson RD, Strahl BD, Diao Y, Tackett AJ, Raab JR, Cai L, Song J, and Wang GG
- Subjects
- Animals, Humans, Mice, Animals, Newborn, Cell Line, Chromatin genetics, Chromatin metabolism, Co-Repressor Proteins metabolism, Epigenesis, Genetic, Gene Expression Profiling, Genome genetics, Histone Deacetylases metabolism, Methylation, Protein Domains, Terminal Repeat Sequences genetics, Endogenous Retroviruses genetics, Gene Silencing, Histones metabolism, Intracellular Signaling Peptides and Proteins chemistry, Intracellular Signaling Peptides and Proteins genetics, Intracellular Signaling Peptides and Proteins metabolism, Lysine metabolism, Retroelements genetics
- Abstract
Trimethylation of histone H3 lysine 9 (H3K9me3) is crucial for the regulation of gene repression and heterochromatin formation, cell-fate determination and organismal development
1 . H3K9me3 also provides an essential mechanism for silencing transposable elements1-4 . However, previous studies have shown that canonical H3K9me3 readers (for example, HP1 (refs.5-9 ) and MPP8 (refs.10-12 )) have limited roles in silencing endogenous retroviruses (ERVs), one of the main transposable element classes in the mammalian genome13 . Here we report that trinucleotide-repeat-containing 18 (TNRC18), a poorly understood chromatin regulator, recognizes H3K9me3 to mediate the silencing of ERV class I (ERV1) elements such as LTR12 (ref.14 ). Biochemical, biophysical and structural studies identified the carboxy-terminal bromo-adjacent homology (BAH) domain of TNRC18 (TNRC18(BAH)) as an H3K9me3-specific reader. Moreover, the amino-terminal segment of TNRC18 is a platform for the direct recruitment of co-repressors such as HDAC-Sin3-NCoR complexes, thus enforcing optimal repression of the H3K9me3-demarcated ERVs. Point mutagenesis that disrupts the TNRC18(BAH)-mediated H3K9me3 engagement caused neonatal death in mice and, in multiple mammalian cell models, led to derepressed expression of ERVs, which affected the landscape of cis-regulatory elements and, therefore, gene-expression programmes. Collectively, we describe a new H3K9me3-sensing and regulatory pathway that operates to epigenetically silence evolutionarily young ERVs and exert substantial effects on host genome integrity, transcriptomic regulation, immunity and development., (© 2023. The Author(s), under exclusive licence to Springer Nature Limited.)- Published
- 2023
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42. Leaf nitrogen and phosphorus stoichiometry of the halophytes across China.
- Author
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Tong R, Ma C, Lou C, Yuan W, Zhu N, Wang GG, and Wu T
- Abstract
Halophytes play a crucial role in the ecological restoration of saline and alkaline land and hold promising benefits to food security in China. Although a variety of aspects of halophytes have been extensively addressed, there is still a lack of overall understanding of the leaf nitrogen (N) and phosphorus (P) stoichiometric characteristics, especially at a national scale. We compiled a national dataset of 311 observations from 113 sampling sites across China to explore the changing trends and influencing factors on leaf N and P concentrations, and N:P ratio of halophytes. The results showed that leaf N concentration decreased significantly with increasing latitude (LAT), which was mainly driven by the mean annual temperature (MAT) and mean annual precipitation (MAP). The leaf P concentration increased remarkably with increasing longitude (LON), which was induced by the variation in soil total P (TP) content. The leaf N:P ratio increased as LAT increased and LON decreased, which was potentially regulated by the MAT, MAP, and soil TP content. The scaling exponents of the N-P relationship differed significantly among halophyte types and were 0.40, 0.87, and 1.39 for euhalophyte, pseudohalophyte, and recretohalophyte, respectively. The leaf N concentration exhibited significant differences among ecosystem types and halophyte types, whereas the leaf P concentration and N:P ratio remained relatively stable. In summary, the leaf N concentration and N-P scaling exponent might be the classification criteria for halophyte types from the perspective of plant nutrient resource allocation. Moreover, this study characterized the spatial distribution and allocation strategy of leaf N and P stoichiometry in halophytes by data integration analysis, providing the basic information for nutrient management in the processes of the future domestication and introduction of halophytes., Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2023 Tong, Ma, Lou, Yuan, Zhu, Wang and Wu.)
- Published
- 2023
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43. Financial impact of nosocomial infections on surgical patients in an eastern Chinese hospital: a propensity score matching study.
- Author
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Xiong CL, Wang GG, and Hanafi WU
- Subjects
- Humans, Retrospective Studies, Case-Control Studies, Propensity Score, Hospital Costs, Length of Stay, Hospitals, Cross Infection epidemiology
- Abstract
This study, conducted at Zhejiang Taizhou Hospital, China, aimed to examine the financial impact of nosocomial infections on surgical patients. A retrospective case-control study using propensity score matching was conducted over a 9-month period from January to September 2022. The study included 729 surgical patients with nosocomial infections and 2187 matched controls without infections. Medical expenses, length of hospitalization and total economic burden were compared between the two groups. The rate of nosocomial infections in surgical cases was 2.66%. The median hospitalization cost for patients with nosocomial infections was US$8220, compared with US$3294 for controls. The overall additional medical expenditure attributable to nosocomial infections amounted to US$4908. Notable median differences were observed between cases with nosocomial infections and controls in terms of total hospitalization cost, nursing services, medication, treatment, materials, test fees and blood transfusion fees. In each age group, medical costs for patients with nosocomial infections were more than twice those of controls. Additionally, hospital stays for surgical patients with nosocomial infections were, on average, 13 days longer compared with controls. These findings highlight the importance of implementing effective infection control measures in hospitals to reduce the financial burden on patients and the healthcare system., (Copyright © 2023 The Author(s). Published by Elsevier Ltd.. All rights reserved.)
- Published
- 2023
- Full Text
- View/download PDF
44. Onco-condensates: formation, multi-component organization, and biological functions.
- Author
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Xu C, Kim A, Corbin JM, and Wang GG
- Subjects
- Humans, Chromatin genetics, Carcinogenesis, Cell Transformation, Neoplastic
- Abstract
Numerous cellular processes occur in the context of condensates, a type of large, membrane-less biomolecular assembly generated through phase separation. These condensates function as a hub of diversified cellular events by concentrating the required components. Cancer frequently coopts biomolecular condensation mechanisms to promote survival and/or proliferation. Onco-condensates, which refer to those that have causal roles or are critically involved in tumorigenicity, operate to abnormally elevate biological output of a proliferative process, or to suppress a tumor-suppressive pathway, thereby promoting oncogenesis. Here, we summarize advances regarding how multi-component onco-condensates are established and organized to promote oncogenesis, with those related to chromatin and transcription deregulation used as showcases. A better understanding should enable development of new means of targeting onco-condensates as potential therapeutics., Competing Interests: Declaration of interests The authors have no interests to declare., (Copyright © 2023 Elsevier Inc. All rights reserved.)
- Published
- 2023
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45. FcRn inhibitors: a novel option for the treatment of myasthenia gravis.
- Author
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Zhu LN, Hou HM, Wang S, Zhang S, Wang GG, Guo ZY, and Wu J
- Abstract
Myasthenia gravis is an acquired, humoral immunity-mediated autoimmune disease characterized by the production of autoantibodies that impair synaptic transmission at the neuromuscular junction. The intervention-mediated clearance of immunoglobulin G (IgG) was shown to be effective in controlling the progression of the disease. The neonatal Fc receptor (FcRn) plays a key role in prolonging the serum half-life of IgG. Antagonizing FcRn to prevent its binding to IgG can accelerate the catabolism of the latter, resulting in decreased levels of IgG, including pathogenic autoantibodies, thereby achieving a therapeutic effect. In this review, we detail the substantial research progress, both basic and clinical, relating to the use of FcRn inhibitors in the treatment of myasthenia gravis., Competing Interests: None
- Published
- 2023
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- View/download PDF
46. Synthesis of Visible Light Excitable Carbon Dot Phosphor-Al 2 O 3 Hybrids for Anti-Counterfeiting and Information Encryption.
- Author
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Lu D, Lu K, Wen HT, Wei Z, Bianco A, Wang GG, and Zhang HY
- Abstract
The preparation of room temperature phosphorescent carbon dots still faces great challenges, especially in the case of carbon dots endowed of visible-light excitable room temperature phosphorescence (RTP). To date, a limited number of substrates have been exploited to synthesize room temperature phosphorescent carbon dots, and most of them can emit RTP only in solid state. Here, the synthesis of a composite obtained from the calcination of green carbon dots (g-CDs) blended with aluminum hydroxide (Al(OH)
3 ) is reported. The resultant hybrid material g-CDs@Al2 O3 exhibits blue fluorescence and green RTP emissions in an on/off switch process at 365 nm. Notably, this composite manifests strong resistance to extreme acid and basic conditions up to 30 days of treatment. The dense structure of Al2 O3 formed by calcination contributes to the phosphorescent emission of g-CDs. Surprisingly, g-CDs@Al2 O3 can also emit yellow RTP under irradiation with white light. The multicolor emissions can be employed for anti-counterfeiting and information encryption. This work provides a straightforward approach to produce room temperature phosphorescent carbon dots for a wide range of applications., (© 2023 Wiley-VCH GmbH.)- Published
- 2023
- Full Text
- View/download PDF
47. AMSUnet: A neural network using atrous multi-scale convolution for medical image segmentation.
- Author
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Yin Y, Han Z, Jian M, Wang GG, Chen L, and Wang R
- Subjects
- Neural Networks, Computer, Image Processing, Computer-Assisted
- Abstract
In recent years, Unet and its variants have gained astounding success in the realm of medical image processing. However, some Unet variant networks enhance their performance while increasing the number of parameters tremendously. For lightweight and performance enhancement jointly considerations, inspired by SegNeXt, we develop a medical image segmentation network model using atrous multi-scale (AMS) convolution, named AMSUnet. In particular, we construct a convolutional attention block AMS using atrous and multi-scale convolution, and redesign the downsampling encoder based on this block, called AMSE. To enhance feature fusion, we design a residual attention mechanism module (i.e., RSC) and apply it to the skip connection. Compared with existing models, our model only needs 2.62 M parameters to achieve the purpose of lightweight. According to experimental results on various datasets, the segmentation performance of the designed model is superior for small, medium, and large-scale targets. Code will be available at https://github.com/llluochen/AMSUnet., Competing Interests: Declaration of competing interest The authors declared that they have no conflicts of interest to this work. We declare that we do not have any commercial or associative interest that represents a conflict of interest in connection with the work submitted., (Copyright © 2023 Elsevier Ltd. All rights reserved.)
- Published
- 2023
- Full Text
- View/download PDF
48. Identification of predictors of long-term survival and prognostic outcomes in thymic squamous cell carcinoma: A real-world study.
- Author
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Zhou MX, Chen YY, Huang C, Liu L, Wang GG, Zhang JQ, Bai WL, Zhao K, and Li SQ
- Subjects
- Humans, Prognosis, Neoplasm Staging, Retrospective Studies, Thymoma pathology, Carcinoma, Squamous Cell pathology, Thymus Neoplasms pathology
- Abstract
Background: Although thymic squamous cell carcinoma (TSCC) is among the most prevalent forms of thymic carcinoma, there are relatively few studies on this tumor type, and its staging, optimal treatment strategies, and relevant prognostic factors remain controversial., Methods: The present study analyzed 79 patients diagnosed with TSCC between January 2008 and January 2021. Kaplan-Meier curves and Cox univariate and multivariate regression analyses were used to explore factors associated with overall survival (OS) and progression-free survival (PFS) in the overall patient cohort and patient subgroups stratified according to the TNM stage. Time-dependent receiver operating characteristic (ROC) analyses were used to compare the TNM and Masaoka systems as predictors of patient prognosis., Results: The 5- and 10-year OS rates in this study were 65.5% and 49.4%, respectively, with corresponding 5- and 10-year PFS rates of 52.3% and 37.9%. Survival outcomes were better for patients with early-stage disease (p < 0.001) and patients that underwent surgical treatment (p < 0.001). Neither extent of resection (p = 0.820) nor the surgical approach (p = 0.444) influenced patient survival. In individuals with advanced disease, all forms of adjuvant therapy including radiotherapy (p = 0.021), chemotherapy (p = 0.035), and chemoradiation (p = 0.01) significantly improved patient PFS, but only adjuvant chemoradiotherapy improved patient OS (p = 0.035). When predicting the patient survival outcomes, the TNM system was slightly superior to the Masaoka system (area under the ROC curve [AUC] at 5 years: OS, 0.742 vs. 0.723; PFS, 0.846 vs. 0.816)., Conclusion: TSCC is an orphan malignancy with a poor prognosis. TNM staging may be superior to Masaoka staging as a predictor of TSCC patient prognosis. Surgery is the mainstay of TSCC treatment. Video-assisted thoracoscopy (VATS) should be considered for selected patients. Multimodal therapy was associated with excellent results for patients with advanced TNM stage, particularly when surgery was accompanied by adjuvant chemoradiation., (© 2023 The Authors. Cancer Medicine published by John Wiley & Sons Ltd.)
- Published
- 2023
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49. An EZH2-NF-κB regulatory axis drives expression of pro-oncogenic gene signatures in triple negative breast cancer.
- Author
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Dardis GJ, Wang J, Simon JM, Wang GG, and Baldwin AS
- Abstract
The histone methyltransferase EZH2 has been studied most extensively in the context of PRC2-dependent gene repression. Accumulating evidence indicates non-canonical functions for EZH2 in cancer contexts including promoting paradoxical gene expression through interactions with transcription factors, including NF-κB in triple negative breast cancer (TNBC). We profile EZH2 and NF-κB factor co-localization and positive gene regulation genome-wide, and define a subset of NF-κB targets and genes associated with oncogenic functions in TNBC that is enriched in patient datasets. We demonstrate interaction between EZH2 and RelA requiring the recently identified transactivation domain (TAD) which mediates EZH2 recruitment to, and activation of certain NF-κB-dependent genes, and supports downstream migration and stemness phenotypes in TNBC cells. Interestingly, EZH2-NF-κB positive regulation of genes and stemness does not require PRC2. This study provides new insight into pro-oncogenic regulatory functions for EZH2 in breast cancer through PRC2-independent, and NF-κB-dependent regulatory mechanisms., Competing Interests: The authors declare no competing interests., (© 2023 The Author(s).)
- Published
- 2023
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50. Discovery of a Potent and Selective Targeted NSD2 Degrader for the Reduction of H3K36me2.
- Author
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Hanley RP, Nie DY, Tabor JR, Li F, Sobh A, Xu C, Barker NK, Dilworth D, Hajian T, Gibson E, Szewczyk MM, Brown PJ, Barsyte-Lovejoy D, Herring LE, Wang GG, Licht JD, Vedadi M, Arrowsmith CH, and James LI
- Subjects
- Gene Expression Regulation, Cell Line, Tumor, Down-Regulation, Histones metabolism, Chromatin
- Abstract
Nuclear receptor-binding SET domain-containing 2 (NSD2) plays important roles in gene regulation, largely through its ability to dimethylate lysine 36 of histone 3 (H3K36me2). Despite aberrant activity of NSD2 reported in numerous cancers, efforts to selectively inhibit the catalytic activity of this protein with small molecules have been unsuccessful to date. Here, we report the development of UNC8153, a novel NSD2-targeted degrader that potently and selectively reduces the cellular levels of both NSD2 protein and the H3K36me2 chromatin mark. UNC8153 contains a simple warhead that confers proteasome-dependent degradation of NSD2 through a novel mechanism. Importantly, UNC8153-mediated reduction of H3K36me2 through the degradation of NSD2 results in the downregulation of pathological phenotypes in multiple myeloma cells including mild antiproliferative effects in MM1.S cells containing an activating point mutation and antiadhesive effects in KMS11 cells harboring the t(4;14) translocation that upregulates NSD2 expression.
- Published
- 2023
- Full Text
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