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An Encoding-Decoding Framework Based on CNN for circ RNA-RBP Binding Sites Prediction

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Chinese Journal of Electronics 2024年第1期33卷 256-263页

作者： Yajing GUO Xiujuan lei Yi pan School of Computer Science Shaanxi Normal University Faculty of Computer Science and Control Engineering Shenzhen Institute of Advanced TechnologyChinese Academy of Sciences Department of Computer Science Georgia State University

Predicting RNA binding protein(RBP) binding sites on circular RNAs(circ RNAs) is a fundamental step to understand their interaction mechanism. Numerous computational methods are developed to solve this problem, but they cannot fully learn the features. Therefore, we propose circ-CNNED, a convolutional neural network(CNN)-based encoding and decoding framework. We first adopt two encoding methods to obtain two original matrices. We preprocess them using CNN before fusion. To capture the feature dependencies, we utilize temporal convolutional network(TCN) and CNN to construct encoding and decoding blocks, respectively. Then we introduce global expectation pooling to learn latent information and enhance the robustness of circ-CNNED. We perform circ-CNNED across 37 datasets to evaluate its effect. The comparison and ablation experiments demonstrate that our method is superior. In addition, motif enrichment analysis on four datasets helps us to explore the reason for performance improvement of circ-CNNED.

关键词： Circular RNAs (circRNAs) RNA binding proteins Convolutional neural network Temporal convolutional network Encoder-decoder network

Efficacy of scraping therapy on blood pressure and sleep quality in stage Ⅰ and Ⅱ essential hypertension: A systematic review and meta-analysis

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Journal of Integrative Medicine 2024年第1期22卷 12-21页

作者： Zheng-gang Zhu jian-ru Wang Xiao-yan pan School of Nursing Hunan University of Chinese MedicineChangsha 410208Hunan ProvinceChina School of Health Sciences Universiti Sains MalaysiaKubang Kerian 16150KelantanMalaysia Department of Cardiovascular Medicine the First Affiliated Hospital of Henan University of Chinese MedicineZhengzhou 450000Henan ProvinceChina

Background Scraping therapy is widely used in treating stage I and II essential hypertension in China.However,there has been no systematic evaluation of the efficacy of scraping therapy on blood pressure and sleep quality in stage I and II essential hypertension.Search strategy Seven electronic databases(PubMed,Scopus,Cochrane Library,Web of Science,EBSCO,China National Knowledge Infrastructure and Wanfang Data electronic databases)were searched from inception to December 2022.Based on the principle of combining subject words with text words,the search strategy was constructed around search terms for“scraping therapy,”“scraping,”“Guasha,”“Gua sha,”“hypertension,”and“high blood pressure”during the database searches.Inclusion criteria Randomized controlled trials(RCTs)were included if they recruited patients with stage I and II essential hypertension and included a scraping therapy intervention.The intervention group received antihypertensive drugs and scraping therapy,while the control group only took antihypertensive drugs.Data extraction and analysis Review Manager 5.4.0 and STATA 15.1 were used to enter all the relevant outcome variables to conduct the meta-analysis.The quality of the selected RCTs was assessed using the PEDro scale.The sensitivity analysis was carried out by iteratively excluding individual studies and repeating the analysis to determine the stability of the findings and identify any studies with greater influence on the outcome.Subgroup analysis was performed to find the source of heterogeneity.Funnel plots were used to evaluate the publication bias of included studies.Results Nine RCTs including 765 participants were selected.Meta-analysis showed that scraping therapy combined with medication had an advantage over the use of medication alone in lowering systolic blood pressure(mean difference[MD]=?5.09,95%confidence interval[CI]=?6.50 to?3.67,P<0.001)and diastolic blood pressure(MD=?2.66,95%CI=?3.17 to?2.14,P<0.001).Subgroup analysis showed that scraping therapy improved sleep quality in mid

关键词： Scraping therapy Essential hypertension Efficacy Blood pressure Sleep quality Systematic review Meta-analysis

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Molecular Generation and Optimization of Molecular Properties Using a Transformer Model

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Big Data Mining and Analytics 2024年第1期7卷 142-155页

作者： Zhongyin Xu Xiujuan lei Mei Ma Yi pan School of Computer Science Shaanxi Normal UniversityXi'an 710119China Faculty of Computer Science and Control Engineering Shenzhen Institute of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China

Generating novel molecules to satisfy specific properties is a challenging task in modern drug discovery,which requires the optimization of a specific objective based on satisfying chemical rules.Herein,we aim to optimize the properties of a specific molecule to satisfy the specific properties of the generated molecule.The Matched Molecular Pairs(MMPs),which contain the source and target molecules,are used herein,and logD and solubility are selected as the optimization properties.The main innovative work lies in the calculation related to a specific transformer from the perspective of a matrix dimension.Threshold intervals and state changes are then used to encode logD and solubility for subsequent tests.During the experiments,we screen the data based on the proportion of heavy atoms to all atoms in the groups and select 12365,1503,and 1570 MMPs as the training,validation,and test sets,respectively.Transformer models are compared with the baseline models with respect to their abilities to generate molecules with specific properties.Results show that the transformer model can accurately optimize the source molecules to satisfy specific properties.

关键词： molecular optimization transformer Matched Molecular Pairs(MMPs) logD solubility

Shear band evolution and acoustic emission characteristics of sandstone containing non-persistent flaws

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Journal of Rock Mechanics and Geotechnical Engineering 2024年第2期16卷 497-513页

作者： Shuting Miao Peng-Zhi pan Chuanqing Zhang lei Huo State Key Laboratory of Geomechanics and Geotechnical Engineering Institute of Rock and Soil MechanicsChinese Academy of SciencesWuhan430071China University of Chinese Academy of Sciences Beijing100049China CASIC Research Institute of Intelligent Decision Engineering Wuhan430040China

Direct shear tests were conducted on sandstone specimens under different constant normal stresses to study the coalescence of cracks between non-persistent flaws and the shear sliding characteristics of the shear-formed fault.Digital image correlation and acoustic emission(AE)techniques were used to monitor the evolution of shear bands at the rock bridge area and microcracking behaviors.The experimental results revealed that the shear stresses corresponding to the peak and sub-peak in the stressdisplacement curve are significantly affected by the normal stress.Strain localization bands emerged at both the tip of joints and the rock bridge,and their extension and interaction near the peak stress caused a surge in the AE hit rate and a significant decrease in the AE b value.Short and curvilinear strain bands were detected at low normal stress,while high normal stress generally led to more microcracking events and longer coplanar cracks at the rock bridge area.Furthermore,an increase in normal stress resulted in a higher AE count rate and more energetic AE events during friction sliding along the shearformed fault.It was observed that the elastic energy released during the crack coalescence at the prepeak stage was much greater than that released during friction sliding at the post-peak stage.More than 75%of AE events were located in the low-frequency band(0e100 kHz),and this proportion continued to rise with increasing normal stress.Moreover,more AE events of low AF value and high RA value were observed in specimens subjected to high normal stress,indicating that greater normal stress led to more microcracks of shear nature.

关键词： Shear band evolution Acoustic emission(AE) Crack coalescence Normal stress Shear sliding

Structural analysis of conformational changes in the mpox virus A7 protein

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Virologica Sinica 2024年第2期39卷 331-334页

作者： Xincheng Ni Kai Wang Yinze Han jian lei National Clinical Research Center for Geriatrics and State Key Laboratory of Biotherapy and Cancer CenterWest China HospitalSichuan UniversityChengdu610041China

Dear Editor,The mpox(formerly known as monkeypox)disease caused by the mpox virus(MPXV)has infected more than 89,700 people and is linked to 157 deaths in 114 countries worldwide as of September 2023(www.***.int).Mpox is a zoonotic disease,the first human case of which was reported in 1970(Breman et al.,1980).Common symptoms in mpox-infected individuals include fever,myalgia,fatigue,headache,and a characteristic rash(Isidro et al.,2022).Current treatments for mpox remain limited,and an in-depth investigation of essential viral protein(s)will help to explore novel drug targets.

关键词： infected headache

Research on the MPPT of Photovoltaic Power Generation Based on Improved WOA and P&O under Partial Shading Conditions

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Energy Engineering 2024年第4期121卷 951-971页

作者： jian Zhong lei Zhang Ling Qin School of Electrical Engineering Nantong UniversityNantong226019China

Partial shading conditions(PSCs)caused by uneven illumination become one of the most common problems in photovoltaic(PV)systems,which can make the PV power-voltage(P-V)characteristics curve show multi-peaks.Traditional maximum power point tracking(MPPT)methods have shortcomings in tracking to the global maximum power point(GMPP),resulting in a dramatic decrease in output power.In order to solve the above problems,intelligent algorithms are used in MPPT.However,the existing intelligent algorithms have some disadvantages,such as slow convergence speed and large search oscillation.Therefore,an improved whale algorithm(IWOA)combined with the P&O(IWOA-P&O)is proposed for the MPPT of PV power generation in this paper.Firstly,IWOA is used to track the range interval of the GMPP,and then P&O is used to accurately find the MPP in that interval.Compared with other algorithms,simulation results show that this method has an average tracking efficiency of 99.79%and an average tracking time of 0.16 s when tracking GMPP.Finally,experimental verification is conducted,and the results show that the proposed algorithm has better MPPT performance compared to popular particle swarm optimization(PSO)and PSO-P&O algorithms.

关键词： Photovoltaic power generation maximum power point tracking whale algorithm perturbation and observation

Double-ring high-frequency common-mode switching oscillation current sensor for inverter-fed machine winding insulation monitoring

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Global Energy Interconnection 2024年第1期7卷 106-116页

作者： Lingqing pan Xizhou Du Xing lei Ting Ye Dawei Xiang Hao Li College of Electrical Power Engineering Shanghai University of Electric PowerShanghai 200090P.R.China State Grid Shanghai Municipal Electric Power Company Shanghai 200122P.R.China College of Electronics and Information Engineering Tongji UniversityShanghai 201804P.R.China

Insulation failure significantly contributes to the unpredictable shutdown of power equipment.Compared to the partial discharge and high-frequency(HF)injection methods,the HF common-mode(CM)leakage current method offers a non-intrusive and highly sensitive alternative.However,the detection of HF CM currents is susceptible to interference from differential-mode(DM)currents,which exhibit high-amplitude and multifrequency components during normal operation.To address this challenge,this paper proposes a double-ring current sensor based on the principle of magnetic shielding for inverter-fed machine winding insulation monitoring.The inner ring harnesses the magnetic aggregation effect to isolate the DM current magnetic field,whereas the outer ring serves as the magnetic core of the Rogowski current sensor,enabling HF CM current monitoring.First,the magnetic field distributions of the CM and DM currents were analyzed.Then,a correlation between the sensor parameters and signal-to-noise ratio of the target HF CM current was established.Finally,an experimental study was conducted on a 3-kW PMSM for verification.The results indicate that the proposed double-ring HF CM sensor can effectively mitigate DM current interference.Compared to a single-ring sensor,a reduction of approximately 40%in the DM component was achieved,which significantly enhanced the precision of online insulation monitoring.

关键词： Magnetic shielding Double-ring Common-mode current Maxwell simulation

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Drug-Target Interactions Prediction Based on Signed Heterogeneous Graph Neural Networks

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Chinese Journal of Electronics 2024年第1期33卷 231-244页

作者： Ming CHEN Yajian jianG Xiujuan lei Yi pan Chunyan JI Wei jianG College of Information Science and Engineering Hunan Normal University School of Computer Science Shaanxi Normal University Faculty of Computer Science and Control Engineering Shenzhen Institute of Advanced TechnologyChinese Academy of Sciences Computer Science Department BNU-HKBU United International College

Drug-target interactions(DTIs) prediction plays an important role in the process of drug discovery.Most computational methods treat it as a binary prediction problem, determining whether there are connections between drugs and targets while ignoring relational types information. Considering the positive or negative effects of DTIs will facilitate the study on comprehensive mechanisms of multiple drugs on a common target, in this work, we model DTIs on signed heterogeneous networks, through categorizing interaction patterns of DTIs and additionally extracting interactions within drug pairs and target protein pairs. We propose signed heterogeneous graph neural networks(SHGNNs), further put forward an end-to-end framework for signed DTIs prediction, called SHGNN-DTI,which not only adapts to signed bipartite networks, but also could naturally incorporate auxiliary information from drug-drug interactions(DDIs) and protein-protein interactions(PPIs). For the framework, we solve the message passing and aggregation problem on signed DTI networks, and consider different training modes on the whole networks consisting of DTIs, DDIs and PPIs. Experiments are conducted on two datasets extracted from Drug Bank and related databases, under different settings of initial inputs, embedding dimensions and training modes. The prediction results show excellent performance in terms of metric indicators, and the feasibility is further verified by the case study with two drugs on breast cancer.

关键词： Drug-target interactions Signed heterogeneous network Link sign prediction Graph neural networks

Cage-confinement synthesis of MoC nanoclusers as efficient sulfiphilic and lithiophilic regulator for superior Li–S batteries

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Rare Metals 2024年第2期43卷 624-634页

作者： Xing-Yuan Zhang Mei-Na lei Shan Tian jian-Gan Wang State Key Laboratory of Solidification Processing Center for Nano Energy MaterialsSchool of Materials Science and EngineeringNorthwestern Polytechnical University and Shaanxi Joint Laboratory of Graphene(NPU)Xi’an710072China

High-energy-density Li-S batteries are subjected to serious sulfur deactivation and short cycle lifetime caused by undesirable polysulfide shuttle effect and frantic lithium dendrite formation.In this work,a controllable cage-confinement strategy to fabricate molybdenum carbide(MoC)nanoclusters as a high-efficient sulfiphilic and lithiophilic regulator to mitigate the formidable issues of Li-S batteries is demonstrated.The sub-2 nm MoC nanoclusters not only guarantee robust chemisorption and fast electrocatalytic conversion of polysulfides to enhance the sulfur electrochemistry,but also homogenize Li^(+) flux to suppress the lithium dendrite growth.As a consequence,the MoC-modified separator endows the batteries with boosted reaction kinetics,promoted sulfur utilization,and improved cycling stability.A reversible capacity of 701 mAh·g^(−1) at a high rate of 5.0C and a small decay rate of 0.076%per cycle at 1.0C over 600 cycles are achieved.This study offers a rational route for design and synthesis of bifunctional nanoclusers with both sulfiphilicity and lithiophilicity for high-performance Li-S batteries.

关键词： Li-S batteries Nanocluster Electrocatalyst Polysulfide shuttle Li dendrites

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