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Perturbation response scanning of drug-target networks:Drug repurposing for multiple sclerosis 认领 引用 被引量：2
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作者 Yitan Lu Ziyun Zhou +10 位作者 Qi Li Bin Yang Xing Xu Yu Zhu Mengjun Xie Yuwan Qi Fei Xiao Wenying Yan Zhongjie Liang Qifei Cong Guang Hu 《Journal of Pharmaceutical Analysis》 SCIE CAS CSCD 2025年第6期1277-1290,共14页
Combined with elastic network model(ENM),the perturbation response scanning(PRS)has emerged as a robust technique for pinpointing allosteric interactions within proteins.Here,we proposed the PRS analysis of drug-targe... Combined with elastic network model(ENM),the perturbation response scanning(PRS)has emerged as a robust technique for pinpointing allosteric interactions within proteins.Here,we proposed the PRS analysis of drug-target networks(DTNs),which could provide a promising avenue in network medicine.We demonstrated the utility of the method by introducing a deep learning and network perturbation-based framework,for drug repurposing of multiple sclerosis(MS).First,the MS comorbidity network was constructed by performing a random walk with restart algorithm based on shared genes between MS and other diseases as seed nodes.Then,based on topological analysis and functional annotation,the neurotransmission module was identified as the“therapeutic module”of MS.Further,perturbation scores of drugs on the module were calculated by constructing the DTN and introducing the PRS analysis,giving a list of repurposable drugs for MS.Mechanism of action analysis both at pathway and structural levels screened dihydroergocristine as a candidate drug of MS by targeting a serotonin receptor of se-rotonin 2B receptor(HTR2B).Finally,we established a cuprizone-induced chronic mouse model to evaluate the alteration of HTR2B in mouse brain regions and observed that HTR2B was significantly reduced in the cuprizone-induced mouse cortex.These findings proved that the network perturbation modeling is a promising avenue for drug repurposing of MS.As a useful systematic method,our approach can also be used to discover the new molecular mechanism and provide effective candidate drugs for other complex diseases. 展开更多
关键词 Network perturbations Mechanism of action Multiple sclerosis HTR2B
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Application of Weighted Cross-Entropy Loss Function in Intrusion Detection 认领 引用 被引量：3
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作者 Ziyun Zhou Hong Huang Binhao Fang 《Journal of Computer and Communications》 2021年第11期1-21,共21页
The deep learning model is overfitted and the accuracy of the test set is reduced when the deep learning model is trained in the network intrusion detection parameters, due to the traditional loss function convergence... The deep learning model is overfitted and the accuracy of the test set is reduced when the deep learning model is trained in the network intrusion detection parameters, due to the traditional loss function convergence problem. Firstly, we utilize a network model architecture combining Gelu activation function and deep neural network;Secondly, the cross-entropy loss function is improved to a weighted cross entropy loss function, and at last it is applied to intrusion detection to improve the accuracy of intrusion detection. In order to compare the effect of the experiment, the KDDcup99 data set, which is commonly used in intrusion detection, is selected as the experimental data and use accuracy, precision, recall and F1-score as evaluation parameters. The experimental results show that the model using the weighted cross-entropy loss function combined with the Gelu activation function under the deep neural network architecture improves the evaluation parameters by about 2% compared with the ordinary cross-entropy loss function model. Experiments prove that the weighted cross-entropy loss function can enhance the model’s ability to discriminate samples. 展开更多
关键词 Cross-Entropy Loss Function Visualization Analysis Intrusion Detection KDD Data Set Accuracy
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Study on the Teaching Reform of Plant Physiology in the Context of Modern Education 认领 引用
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作者 Ziyun ZHOU Yan TANG 《Asian Agricultural Research》 2017年第12期72-74,共3页
The Plant Physiology is characterized by wide coverage,strong theories and practicality,and limited class hour.In view of these characteristics,this paper introduced the reform of teaching methods,including reform of ... The Plant Physiology is characterized by wide coverage,strong theories and practicality,and limited class hour.In view of these characteristics,this paper introduced the reform of teaching methods,including reform of teaching content,reform of teaching methods and means,reform of experimental teaching and examination methods.It is expected to achieve the objective of improving the teaching effect of Plant Physiology. 展开更多
关键词 Plant Physiology Teaching reform Teaching methods
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New genetic and epigenetic insights into the chemokine system: the latest discoveries aiding progression toward precision medicine 认领 引用 被引量：3
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作者 Hanli Xu Shuye Lin +13 位作者 Ziyun Zhou Duoduo Li Xiting Zhang Muhan Yu Ruoyi Zhao Yiheng Wang Junru Qian Xinyi Li Bohan Li Chuhan Wei Keqiang Chen Teizo Yoshimura Ji Ming Wang Jiaqiang Huang 《Cellular & Molecular Immunology》 SCIE CAS CSCD 2023年第7期739-776,共38页
Over the past thirty years,the importance of chemokines and their seven-transmembrane G protein-coupled receptors(GPCRs)has been increasingly recognized.Chemokine interactions with receptors trigger signaling pathway ... Over the past thirty years,the importance of chemokines and their seven-transmembrane G protein-coupled receptors(GPCRs)has been increasingly recognized.Chemokine interactions with receptors trigger signaling pathway activity to form a network fundamental to diverse immune processes,including host homeostasis and responses to disease.Genetic and nongenetic regulation of both the expression and structure of chemokines and receptors conveys chemokine functional heterogeneity.Imbalances and defects in the system contribute to the pathogenesis of a variety of diseases,including cancer,immune and inflammatory diseases,and metabolic and neurological disorders,which render the system a focus of studies aiming to discover therapies and important biomarkers.The integrated view of chemokine biology underpinning divergence and plasticity has provided insights into immune dysfunction in disease states,including,among others,coronavirus disease 2019(COVID-19).In this review,by reporting the latest advances in chemokine biology and results fromanalyses of a plethora of sequencing-based datasets,we outline recent advances in the understanding of the genetic variations and nongenetic heterogeneity of chemokines and receptors and provide an updated view of their contribution to the pathophysiological network,focusing on chemokine-mediated inflammation and cancer.Clarification of the molecular basis of dynamic chemokine-receptor interactions will help advance the understanding of chemokine biology to achieve precision medicine application in the clinic. 展开更多
关键词 Chemokine Chemokine receptor Migration Homeostasis Genetics Epigenetics
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Identification of lipid droplets in gut bacteria 认领 引用 被引量：1
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作者 Kai Zhang Chang Zhou +13 位作者 Zemin Li Xuehan Li Ziyun Zhou Linjia Cheng Ahmed Hammad Mirza Yumeng Shi Bingbing Chen Mengwei Zhang Liujuan Cui Congyan Zhang Taotao Wei Xuelin Zhang Shuyan Zhang Pingsheng Liu 《Protein & Cell》 SCIE CSCD 2023年第2期143-148,共6页
Dear Editor,The field of gut microbiota is progressing rapidly and thus,appellations like the last human organ,a separate organ,a forgotten organ,and a new organ have been applied to gut microbiota to emphasize its vi... Dear Editor,The field of gut microbiota is progressing rapidly and thus,appellations like the last human organ,a separate organ,a forgotten organ,and a new organ have been applied to gut microbiota to emphasize its vital functions in our body(Chang and Kao,2019).Gut microbiota has been shown to play a central role in the regulation of human lipid metabolism and be associated with lipid metabolism disorders when aberrant,through composition and microbial metabolites. 展开更多
关键词 metabolism gut vital
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Apolipoprotein A-IV and its derived peptide, T55−121, improve glycemic control and increase energy expenditure 认领 引用
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作者 Zhen Cao Lei Lei +13 位作者 Ziyun Zhou Shimeng Xu Linlin Wang Weikang Gong Qi Zhang Bin Pan Gaoxin Zhang Quan Yuan Liujuan Cui Min Zheng Tao Xu You Wang Shuyan Zhang Pingsheng Liu 《Life Metabolism》 2024年第4期1-12,共12页
It is crucial to understand the glucose control within our bodies.Bariatric/metabolic surgeries,including laparoscopic sleeve gastrec-tomy(LSG)and Roux-en-Y gastric bypass(RYGB),provide an avenue for exploring the pot... It is crucial to understand the glucose control within our bodies.Bariatric/metabolic surgeries,including laparoscopic sleeve gastrec-tomy(LSG)and Roux-en-Y gastric bypass(RYGB),provide an avenue for exploring the potential key factors involved in maintaining glucose homeostasis since these surgeries have shown promising results in improving glycemic control among patients with severe type 2 diabetes(T2D).For the first time,a markedly altered population of serum proteins in patients after LSG was discovered and analyzed through proteomics.Apolipoprotein A-IV(apoA-IV)was revealed to be increased dramatically in diabetic obese patients following LSG,and a similar effect was observed in patients after RYGB surgery.Moreover,recombinant apoA-IV protein treatment was proven to enhance insulin secretion in isolated human islets.These results showed that apoA-IV may play a crucial role in gly-cemic control in humans,potentially through enhancing insulin secretion in human islets.ApoA-IV was further shown to enhance energy expenditure and improve glucose tolerance in diabetic rodents,through stimulating glucose-dependent insulin secretion in pancreaticβcells,partially via Gαs-coupled GPCR/cAMP(G protein-coupled receptor/cyclic adenosine monophosphate)signaling.Furthermore,T55-121,truncated peptide 55-121 of apoA-IV,was discovered to mediate the function of apoA-IV.These collective findings contribute to our understanding of the relationship between apoA-IV and glycemic control,highlighting its potential as a biomarker or therapeutic target in managing and improving glucose regulation. 展开更多
关键词 bariatric/metabolic surgeries proteomics apolipoprotein A-IV glucose tolerance glucose-stimulated insulin secretion human islets
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