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Chemical Research in Chinese Universities 2009年第4期25卷 537-542页

作者： bu xin-yuan JIAO Lian-sheng HAN Dong-xue YANG Gui-fu State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied Chemistry Chinese Academy of Sciences Changchun 130022 P. R. China School of Computer Science Northeast Normal University Changchun 130024 P. R. China

The in situ electrochemical quartz crystal microbalance（EQCM） technique was used to investigate the ion transport of immobilized heteropolyanions at a self-assembled monolayer（SAM） modified gold electrode during electrochemical redox process.A mixed transfer method was presented to analyse the abnormal change of resonant frequency based on the simultaneous insertion/extraction of different ions.The results indicate that the migration of HSO4-anions was indispensable in the redox process of the heteropolyanions in a 1 mol/L H2SO4 solution and played a key role in the abnormal change of the resonant frequency.Such a change was attributed to different packing densities derived by means of differently immobilized methods.

关键词： Heteropolyanion Charge transport Self-assembled monolayer Electrochemical quartz crystal microbalance

Exploring noncoding variants in genetic diseases:from detection to functional insights

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Journal of Genetics and Genomics 2024年第2期51卷 111-132页

作者： Ke Wu Fengxiao bu Yang Wu Gen Zhang xin Wang Shunmin He Mo-Fang Liu Runsheng Chen Huijun yuan Institute of Rare Diseases West China Hospital of Sichuan UniversityChengduSichuan 610041China Key Laboratory of Systems Health Science of Zhejiang Province School of Life ScienceHangzhou Institute for Advanced StudyUniversity of Chinese Academy of SciencesHangzhouZhejiang 310024China Key Laboratory of RNA Biology Center for Big Data Research in HealthInstitute of BiophysicsChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China State Key Laboratory of Molecular Biology State Key Laboratory of Cell BiologyShanghai Key Laboratory of Molecular AndrologyShanghai Institute of Biochemistry and Cell BiologyCenter for Excellence in Molecular Cell ScienceChinese Academy of SciencesShanghai 200031China

Previous studies on genetic diseases predominantly focused on protein-coding variations, overlooking the vast noncoding regions in the human genome. The development of high-throughput sequencing technologies and functional genomics tools has enabled the systematic identification of functional noncoding variants. These variants can impact gene expression, regulation, and chromatin conformation, thereby contributing to disease pathogenesis. Understanding the mechanisms that underlie the impact of noncoding variants on genetic diseases is indispensable for the development of precisely targeted therapies and the implementation of personalized medicine strategies. The intricacies of noncoding regions introduce a multitude of challenges and research opportunities. In this review, we introduce a spectrum of noncoding variants involved in genetic diseases, along with research strategies and advanced technologies for their precise identification and in-depth understanding of the complexity of the noncoding genome. We will delve into the research challenges and propose potential solutions for unraveling the genetic basis of rare and complex diseases.

关键词： Noncoding variation Genetic disease Research approach Challenge

SDGNN: Symmetry-Preserving Dual-Stream Graph Neural Networks

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IEEE/CAA Journal of Automatica Sinica 2024年第7期11卷 1717-1719页

作者： Jiufang Chen Ye yuan xin Luo the College of Computer Science and Technology Chongqing University of Posts and TelecommunicationsChongqing 400065 the Chongqing Key Laboratory of Big Data and Intelligent Computing Chongqing Institute of Green and Intelligent TechnologyChinese Academy of SciencesChongqing 400714China the College of Computer and Information Science Southwest UniversityChongqing 400715China IEEE

Dear Editor,This letter proposes a symmetry-preserving dual-stream graph neural network(SDGNN) for precise representation learning to an undirected weighted graph(UWG). Although existing graph neural networks(GNNs) are influential instruments for representation learning to a UWG, they invariably adopt a unique node feature matrix for illustrating the sole node set of a UWG.

关键词： representation preserving undirected

Numerical Analysis of Heat Transfer Characteristics to Supercritical CO_(2) in a Vertical Mini-Channel:Transition and Pseudo-Boiling

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Journal of Thermal Science 2024年第1期33卷 101-113页

作者： yuan Baoqiang WANG Wei xin Gongming DU Wenjing School of Energy and Power Engineering Shandong UniversityJi'nan 250061China

Large eddy simulations have been conducted to study upward transitional flows and heat transfer characteristics of supercritical CO_(2) in a vertical mini-channel.The numerical simulation was carried out on a modified buoyantPimpleFOAM solver in OpenFOAM 7,and was verified using experiment data.Numerical results indicate that increasing the Grashof numbers can reduce the flow stability and make the flow transition earlier.There are four stages of heat transfer in the transition process,i.e.,weakened,improved,recovered and normal heat transfer.These heat transfer phenomena in the transition process were explained from three perspectives:thermal boundary layer theory,turbulent transport and pseudo-boiling theory.Heat transfer enhancement during transition is related to the transport of supercritical molecular clusters,and these molecular clusters are regarded as pseudo-bubbles in pseudo-boiling theory.The flow pattern of the pseudo-phases in the dia-Widom process contains single-phase flow,steady pseudo-film flow,unsteady pseudo-film flow,partial pseudo-bubbles flow and flocculent pseudo-film flow.Pseudo-bubbles have similar behaviors to subcritical bubbles,i.e.,break-up,deformation,condensation and coalescence.Relevant researches in this work are favorable for understanding the heat transfer mechanism of supercritical fluids during flow transition.

关键词： supercritical heat transfer large eddy simulation transition pseudo-boiling

Adaptive security control of time-varying constraints nonlinear cyber-physical systems with false data injection attacks

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Journal of Control and Decision 2024年第1期11卷 50-59页

作者： Yue-Ming Wang yuan-xin Li Department of Science Liaoning University of TechnologyJinzhouPeople’s Republic of China

In this article,an adaptive security control scheme is presented for cyber-physical systems(CPSs)suffering from false data injection(FDI)attacks and time-varying state constraints.Firstly,an adaptive bound estimation mechanism is introduced in the backstepping control design to mitigate the effect of FDI attacks.Secondly,to solve the unknown sign time-varying statefeedback gains aroused by the FDI attacks,a type of Nussbaum function is employed in the adaptive security control.Then,by constructing a barrier Lyapunov function,it can be ensured that all signals of controlled system are bounded and the time-varying state constraints are not transgressed.Finally,the provided simulation examples demonstrate the effectiveness of the proposed controller.

关键词： Neural networks backstepping technology false data injection(FDI)attacks nonlinear cyber-physical systems controls

Relationship among Parkinson’s disease, constipation, microbes, and microbiological therapy

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World Journal of Gastroenterology 2024年第3期30卷 225-237页

作者： xin-Yang yuan Yu-Sen Chen Zhou Liu Department of Neurology Affiliated Hospital of Guangdong Medical UniversityZhanjiang 524000Guangdong ProvinceChina Institute of Neurology Guangdong Key Laboratory of Age-Related Cardiac and Cerebral DiseasesZhanjiang 524000Guangdong ProvinceChina

This comprehensive review elucidates the complex interplay between gut microbiota and constipation in Parkinson’s disease(PD),a prevalent non-motor symptom contributing significantly to patients’morbidity.A marked alteration in the gut microbiota,predominantly an increase in the abundance of Proteobacteria and Bacteroidetes,is observed in PD-related constipation.Conventional treatments,although safe,have failed to effectively alleviate symptoms,thereby necessitating the development of novel therapeutic strategies.Microbiological interventions such as prebiotics,probiotics,and fecal microbiota transplantation(FMT)hold therapeutic potential.While prebiotics improve bowel movements,probiotics are effective in enhancing stool consistency and alleviating abdominal discomfort.FMT shows potential for significantly alleviating constipation symptoms by restoring gut microbiota balance in patients with PD.Despite promising developments,the causal relationship between changes in gut microbiota and PD-related constipation remains elusive,highlighting the need for further research in this expanding field.

关键词： Parkinson disease Constipation Gut microbiota Prebiotics Probiotics Fecal microbiota transplantation

Knowledge Graph Enhanced Transformers for Diagnosis Generation of Chinese Medicine

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Chinese Journal of Integrative Medicine 2024年第3期30卷 267-276页

作者： WANG xin-yu YANG Tao GAO Xiao-yuan HU Kong-fa School of Artificial Intelligence and Information Technology Nanjing University of Chinese MedicineNanjing210023China School of Information Management Nanjing UniversityNanjing210023China Jiangsu Collaborative Innovation Center of Traditional Chinese Medicine in Prevention and Treatment of Tumor Nanjing210023China Jiangsu Province Engineering Research Center of TCM Intelligence Health Service Nanjing210023China

Chinese medicine(CM)diagnosis intellectualization is one of the hotspots in the research of CM modernization.The traditional CM intelligent diagnosis models transform the CM diagnosis issues into classification issues,however,it is difficult to solve the problems such as excessive or similar categories.With the development of natural language processing techniques,text generation technique has become increasingly mature.In this study,we aimed to establish the CM diagnosis generation model by transforming the CM diagnosis issues into text generation issues.The semantic context characteristic learning capacity was enhanced referring to Bidirectional Long Short-Term Memory(BILSTM)with Transformer as the backbone network.Meanwhile,the CM diagnosis generation model Knowledge Graph Enhanced Transformer(KGET)was established by introducing the knowledge in medical field to enhance the inferential capability.The KGET model was established based on 566 CM case texts,and was compared with the classic text generation models including Long Short-Term Memory sequence-to-sequence(LSTM-seq2seq),Bidirectional and Auto-Regression Transformer(BART),and Chinese Pre-trained Unbalanced Transformer(CPT),so as to analyze the model manifestations.Finally,the ablation experiments were performed to explore the influence of the optimized part on the KGET model.The results of Bilingual Evaluation Understudy(BLEU),Recall-Oriented Understudy for Gisting Evaluation 1(ROUGE1),ROUGE2 and Edit distance of KGET model were 45.85,73.93,54.59 and 7.12,respectively in this study.Compared with LSTM-seq2seq,BART and CPT models,the KGET model was higher in BLEU,ROUGE1 and ROUGE2 by 6.00–17.09,1.65–9.39 and 0.51–17.62,respectively,and lower in Edit distance by 0.47–3.21.The ablation experiment results revealed that introduction of BILSTM model and prior knowledge could significantly increase the model performance.Additionally,the manual assessment indicated that the CM diagnosis results of the KGET model used in this study were highly consistent with the p

关键词： Chinese medicine diagnosis knowledge graph enhanced transformer text generation

Lipid metabolism, amino acid metabolism, and prostate cancer: a crucial metabolic journey

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Asian Journal of Andrology 2024年第2期26卷 123-134页

作者： Lin Chen Yu-xin Xu yuan-Shuo Wang Jian-Liang Zhou School of Pharmacy Hangzhou Normal UniversityHangzhou 311121China Key Laboratory of Elemene Class Anti-Cancer Chinese Medicines Collaborative Innovation Center of Traditional Chinese Medicines of Zhejiang Province Hangzhou Normal UniversityHangzhou 311121China School of Pharmacy Guangxi Medical UniversityNanning530021China

Prostate cancer(PCa)is one of the most common malignancies in males worldwide,and its development and progression involve the regulation of multiple metabolic pathways.Alterations in lipid metabolism affect the proliferation and metastatic capabilities of PCa cells.Cancer cells increase lipid synthesis and regulate fatty acid oxidation to meet their growth and energy demands.Similarly,changes occur in amino acid metabolism in PCa.Cancer cells exhibit an increased demand for specific amino acids,and they regulate amino acid transport and metabolic pathways to fulfill their proliferation and survival requirements.These changes are closely associated with disease progression and treatment response in PCa cells.Therefore,a comprehensive investigation of the metabolic characteristics of PCa is expected to offer novel insights and approaches for the early diagnosis and treatment of this disease.

关键词： amino acid metabolism lipid metabolism metabolic pathways prostate cancer treatment strategies

Base editor-mediated large-scale screening of functional mutations in bacteria for industrial phenotypes

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Science China(Life Sciences) 2024年第5期67卷 1051-1060页

作者： Yaomeng yuan Xihao Liao Shuang Li xin-Hui xing Chong Zhang MOE Key Laboratory for Industrial Biocatalysis Institute of Biochemical EngineeringDepartment of Chemical EngineeringTsinghua UniversityBeijing 100084China Institute of Biopharmaceutical and Health Engineering Tsinghua Shenzhen International Graduate SchoolShenzhen 518055China Institute of Biomedical Health Technology and Engineering Shenzhen Bay LaboratoryShenzhen 440300China Center for Synthetic and Systems Biology Tsinghua UniversityBeijing 100084China

Base editing,the targeted introduction of point mutations into cellular DNA,holds promise for improving genome-scale functional genome screening to single-nucleotide resolution.Current efforts in prokaryotes,however,remain confined to loss-of-function screens using the premature stop codons-mediated gene inactivation library,which falls far short of fully releasing the potential of base editors.Here,we developed a base editor-mediated functional single nucleotide variant screening pipeline in Escherichia coli.We constructed a library with 31,123 sgRNAs targeting 462 stress response-related genes in E.coli,and screened for adaptive mutations under isobutanol and furfural selective conditions.Guided by the screening results,we successfully identified several known and novel functional mutations.Our pipeline might be expanded to the optimization of other phenotypes or the strain engineering in other microorganisms.

关键词： base editor high-throughput large-scale screening Escherichia coli functional mutation

Optimization of Gas Production from Hydrate-Bearing Sediments with Fluctuation Characteristics

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Journal of Ocean University of China 2024年第3期23卷 618-632页

作者： LI Yaobin XU Tianfu xin xin YU Han yuan Yilong ZHU Huixing Key Laboratory of Groundwater Resources and Environment Ministry of EducationJilin UniversityChangchun 130021China Jilin Provincial Key Laboratory of Water Resources and Environment Jilin UniversityChangchun 130021China

As an important source of low-carbon,clean fossil energy,natural gas hydrate plays an important role in improving the global energy consumption structure.Developing the hydrate industry in the South China Sea is important to achieving‘carbon peak and carbon neutrality’goals as soon as possible.Deep-water areas subjected to the action of long-term stress and tectonic movement have developed complex and volatile terrains,and as such,the morphologies of hydrate-bearing sediments(HBSs)fluctuate correspondingly.The key to numerically simulating HBS morphologies is the establishment of the conceptual model,which represents the objective and real description of the actual geological body.However,current numerical simulation models have characterized HBSs into horizontal strata without considering the fluctuation characteristics.Simply representing the HBS as a horizontal element reduces simulation accuracy.Therefore,the commonly used horizontal HBS model and a model considering the HBS’s fluctuation characteristics with the data of the SH2 site in the Shenhu Sea area were first constructed in this paper.Then,their production behaviors were compared,and the huge impact of the fluctuation characteristics on HBS production was determined.On this basis,the key parameters affecting the depressurization production of the fluctuating HBSs were studied and optimized.The research results show that the fluctuation characteristics have an obvious influence on the hydrate production of HBSs by affecting their temperatures and pressure distributions,as well as the transmission of the pressure drop and methane gas discharge.Furthermore,the results show that the gas productivity of fluctuating HBSs was about 5%less than that of horizontal HBSs.By optimizing the depressurization amplitude,well length,and layout location of vertical wells,the productivity of fluctuating HBSs increased by about 56.6%.

关键词： natural gas hydrate numerical simulation fluctuation characteristics depressurization production production well optimization

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