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A prognostic four-gene signature and a therapeutic strategy for hepatocellular carcinoma:Construction and analysis of a circRNA-mediated competing endogenous RNA network

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Hepatobiliary & Pancreatic Diseases International 2024年第3期23卷 272-287页

作者： Hai-Yan Zhang jia-Jie Zhu Zong-ming Liu Yu-Xuan Zhang jia-jia chen Ke-Da chen Zhejiang Chinese Medical University Hangzhou 310053China Shulan International Medical College Zhejiang Shuren UniversityHangzhou 310015China State Key Laboratory for Diagnosis and Treatment of Infectious Diseases National Clinical Research Center for Infectious DiseasesNational Medical Center for Infectious DiseasesCollaborative Innovation Center for Diagnosis and Treatment of Infectious DiseasesThe First Affiliated HospitalZhejiang University School of MedicineHangzhou 310009China

Background:Hepatocellular carcinoma(HCC)has a poor long-term prognosis.The competition of circular RNAs(circRNAs)with endogenous RNA is a novel tool for predicting HCC prognosis.Based on the alterations of circRNA regulatory networks,the analysis of gene modules related to HCC is feasible.Methods:Multiple expression datasets and RNA element targeting prediction tools were used to construct a circRNA-microRNA-mRNA network in HCC.Gene function,pathway,and protein interaction analyses were performed for the differentially expressed genes(DEGs)in this regulatory network.In the proteinprotein interaction network,hub genes were identified and subjected to regression analysis,producing an optimized four-gene signature for prognostic risk stratification in HCC patients.Anti-HCC drugs were excavated by assessing the DEGs between the low-and high-risk groups.A circRNA-microRNA-hub gene subnetwork was constructed,in which three hallmark genes,KIF4A,CCNA2,and PBK,were subjected to functional enrichment analysis.Results:A four-gene signature(KIF4A,CCNA2,PBK,and ZWINT)that effectively estimated the overall survival and aided in prognostic risk assessment in the The Cancer Genome Atlas(TCGA)cohort and International Cancer Genome Consortium(ICGC)cohort was developed.CDK inhibitors,PI3K inhibitors,HDAC inhibitors,and EGFR inhibitors were predicted as four potential mechanisms of drug action(MOA)in high-risk HCC patients.Subsequent analysis has revealed that PBK,CCNA2,and KIF4A play a crucial role in regulating the tumor microenvironment by promoting immune cell invasion,regulating microsatellite instability(MSI),and exerting an impact on HCC progression.Conclusions:The present study highlights the role of the circRNA-related regulatory network,identifies a four-gene prognostic signature and biomarkers,and further identifies novel therapy for HCC.

关键词： Hepatocellular carcinoma circRNA-related ceRNA network Biomarker Least absolute shrinkage and selection operator Bioinformatics

Angiotensin-converting enzyme 2 alleviates liver fibrosis through the renin-angiotensin system

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World Journal of Gastroenterology 2024年第6期30卷 607-609页

作者： Bai-Wei Zhao Ying-jia chen Ruo-Peng Zhang Yong-ming chen Bo-Wen Huang Department of Gastric Surgery Sun Yat-sen University Cancer CenterState Key Laboratory of Oncology in South ChinaGuangdong Provincial Clinical Research Center for CancerGuangzhou 510060Guangdong ProvinceChina Health Science Center Peking UniversityBeijing 100191China

The present letter to the editor is related to the study titled‘Angiotensin-converting enzyme 2 improves liver fibrosis in mice by regulating autophagy of hepatic stellate cells’.Angiotensin-converting enzyme 2 can alleviate liver fibrosis by regulating autophagy of hepatic stellate cells and affecting the renin-angiotensin system.

关键词： Angiotensin-converting enzyme 2 Hepatic stellate cells Liver fibrosis Angiotensin II Angiotensin 1-7 Renin-angiotensin system

Numerical analysis of the correlation between fluid dynamic modes and hydrodynamic noise in flows around a three-dimensional circular cylinder

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Journal of Hydrodynamics 2024年第1期36卷 119-129页

作者： jia-jia Qin ming-xin Zou Yuan Zhuang De-cheng Wan Computational Marine Hydrodynamics Lab(CMHL) School of Naval ArchitectureOcean and Civil EngineeringShanghai Jiao Tong UniversityShanghai200240China Wuhan Second Ship Design and Research Institute Wuhan430205China

The flow around a circular cylinder for Re=1000 is characterized by flow separation and Karman vortex street.The typical flow features can be captured to study the correlation between fluid fields and sound fields.In this paper,the three-dimensional circular cylinder is taken as the research object,and the probes of surface fluctuating pressure and far field sound pressure are arranged every 10°.The directional diagram and the coherence of fluctuating pressure and sound pressure are analyzed.The relationship between the flow mode and hydrodynamic noise is studied by using dynamic mode decomposition(DMD).The characteristics of the dipole and quadrupole sound source term of a long span cylinder are studied.The results show that at the angles between 30°–120°and 190°–350°,the fluctuating pressure contributes more to the generation of dipole sounds.The quadrupole sound source shows three-dimensional effects,which is more obvious in a cylinder with large spanwise length.

关键词： Pressure coherence dynamic mode decomposition flow-sound correlation circular cylinder

From dichotomy to diversity:deciphering the multifaceted roles of tumor-associated macrophages in cancer progression and therapy

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Cancer Biology & Medicine 2024年第2期21卷 132-138页

作者： Xiumei Wang Jun chen Guangshuai jia Department of Immunology and Microbiology Zhongshan School of MedicineSun Yat-sen UniversityGuangzhou 510080China Jinfeng Laboratory Chongqing 401329China GMU-GIBH Joint School of Life Sciences Guangzhou Medical UniversityGuangzhou 510182China

Macrophages are innate immune cells that are ubiquitously distributed throughout the vertebrate body.Macrophages orchestrate sophisticated processes in development,homeostasis,immunity,and disease1.Macrophages residing in tumor tissues are commonly known as tumor-associated macrophages(TAMs)and promote or inhibit tumor growth depending on the activation state2.

关键词： immunity homeostasis tumor

Intelligent geochemical interpretation of mass chromatograms:Based on convolution neural network

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Petroleum Science 2024年第2期21卷 752-764页

作者： Kai-ming Su Jun-Gang Lu jian Yu Zi-Xing Lu Shi-jia chen Hubei Key Laboratory of Petroleum Geochemistry and Environment Wuhan430100HubeiChina College of Resources and Environment Yangtze UniversityWuhan430100HubeiChina School of Geoscience and Technology Southwest Petroleum UniversityChengdu610500SichuanChina Changqing Oilfield Company PetroChinaXi©an710021ShaanxiChina

Gas chromatography-mass spectrometry(GC-MS)is an extremely important analytical technique that is widely used in organic geochemistry.It is the only approach to capture biomarker features of organic matter and provides the key evidence for oil-source correlation and thermal maturity determination.However,the conventional way of processing and interpreting the mass chromatogram is both timeconsuming and labor-intensive,which increases the research cost and restrains extensive applications of this method.To overcome this limitation,a correlation model is developed based on the convolution neural network(CNN)to link the mass chromatogram and biomarker features of samples from the Triassic Yanchang Formation,Ordos Basin,China.In this way,the mass chromatogram can be automatically interpreted.This research first performs dimensionality reduction for 15 biomarker parameters via the factor analysis and then quantifies the biomarker features using two indexes(i.e.MI and PMI)that represent the organic matter thermal maturity and parent material type,respectively.Subsequently,training,interpretation,and validation are performed multiple times using different CNN models to optimize the model structure and hyper-parameter setting,with the mass chromatogram used as the input and the obtained MI and PMI values for supervision(label).The optimized model presents high accuracy in automatically interpreting the mass chromatogram,with R2values typically above 0.85 and0.80 for the thermal maturity and parent material interpretation results,respectively.The significance of this research is twofold:(i)developing an efficient technique for geochemical research;(ii)more importantly,demonstrating the potential of artificial intelligence in organic geochemistry and providing vital references for future related studies.

关键词： Organic geochemistry Biomarker Mass chromatographic analysis Automated interpretation Convolution neural network Machine learning

Diophantine equations and Fermat's last theorem for multivariate(skew-)polynomials

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Applied Mathematics(A Journal of Chinese Universities) 2024年第1期39卷 159-173页

作者： PAN Jie jia Yu-ming LI Fang School of Mathematical Sciences Zhejiang UniversityHangzhou 310058China Henan Experimental High School Zhengzhou 450003China

Fermat’s Last Theorem is a famous theorem in number theory which is diﬃcult to prove.However,it is known that the version of polynomials with one variable of Fermat’s Last Theorem over C can be proved very concisely.The aim of this paper is to study the similar problems about Fermat’s Last Theorem for multivariate(skew)-polynomials with any characteristic.

关键词： Fermat's last theorem polynomial ring skew polynomial ring

Pyridine-regulated Sb@InSbS3 ultrafine nanoplates as high-capacity and long-cycle anodes for sodium-ion batteries

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Rare Metals 2024年第5期43卷 2080-2092页

作者： jia-Ying Ren Xiang-Lin Yu Chang-Miao chen Xin-Yu Hu Ting Yang ming Zhang College of Materials Science and Engineering and College of Science Central South University of Forestry and Technology College of Semiconductors (College of Integrated Circuits) Changsha Semiconductor Technology and Application Innovation Research InstituteHunan University

Sb-based materials exhibit considerable potential for sodium-ion storage owing to their high theoretica capacities.However,the bulk properties of Sb-based materials always result in poor cycling and rate performances.To overcome these issues,pyridine-regulated Sb@InSbS3ultrafine nanoplates loaded on reduced graphene oxides （Sb@InSbS3@rGO） were designed and synthesized.During the synthesis process,pyridine was initially adopted to coordinate with In3+,and uniformly dispersed In2S3ultrafine nanoplates on reduced graphene oxide were generated after sulfidation.Next,partial In3+was exchanged with Sb3+,and Sb@InSbS3@rGO was obtained by using the subsequent annealing method.The unique structure of Sb@InSbS3@rGO effectively shortened the transfer path of sodium ions and electrons and provided a high pseudocapacitance.As the anode in sodium-ion batteries,the Sb@InSbS3@rGO electrode demonstrated a significantly higher reversible capacity better stability (445 m Ah·g-1at 0.1 A·g-1after 200 cycles and 212 mAh·g-1at 2 A·g-1after 1200 cycles),and superior rate (210 mAh·g-1at 6.4 A·g-1) than the electrode without pyridine (355 mAh·g-1at 0.1 A·g-1after 55 cycles and 109 mAh·g-1at 2 A·g-1after 770 cycles)Furthermore,full cells were assembled by using the Sb@InSbS3@rGO as anode and Na3V2（PO4）3as cathode which demonstrated good cycling and rate performances and exhibited promising application prospects.These results indicate that adjusting the microstructure of electrode materials through coordination balance is A·good strategy for obtaining high-capacity,high-rate,and longcycle sodium storage performances.

关键词： Sodium-ion battery Sb-based anode material Pyridine coordination Reduced size nanostructure Half/full cell

Rogue wave solutions and rogue-breather solutions to the focusing nonlinear Schr?dinger equation

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Communications in Theoretical Physics 2024年第3期76卷 33-41页

作者： Si-jia chen Xing Lü College of Science Tianjin University of TechnologyTianjin 300384People's Republic of China Department of Mathematics Beijing Jiaotong UniversityBeijing 100044People's Republic of China Beijing Laboratory of National Economic Security Early-warning Engineering Beijing Jiaotong UniversityBeijing 100044People's Republic of China

Based on the long wave limit method,the general form of the second-order and third-order rogue wave solutions to the focusing nonlinear Schr?dinger equation are given by introducing some arbitrary parameters.The interaction solutions between the first-order rogue wave and one-breather wave are constructed by taking a long wave limit on the two-breather solutions.By applying the same method to the three-breather solutions,two types of interaction solutions are obtained,namely the first-order rogue wave and two breather waves,the second-order rogue wave and one-breather wave,respectively.The influence of the parameters related to the phase on the interaction phenomena is graphically demonstrated.Collisions occur among the rogue waves and breather waves.After the collisions,the shape of them remains unchanged.The abundant interaction phenomena in this paper will contribute to a better understanding of the propagation and control of nonlinear waves.

关键词： nonlinear Schrodinger equation rogue wave solutions interaction solutions

Big Theta Equals Small Theta Generically

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Acta Mathematica Sinica,English Series 2024年第3期40卷 717-730页

作者： Rui chen jia Liang ZOU Institute for Advanced Study in Mathmatics Zhejiang UniversityHangzhou 310058P.R.China Department of Mathematics University of Michigan530 Church StAnn ArborMI 48109USA

In this paper we consider the theta correspondence over a non-Archimedean local field.Using the homological method and the theory of derivatives,we show that under a mild condition the bigtheta lift is irreducible.

关键词： Theta correspondence derivatives