Objective To construct symptom-formula-herb heterogeneous graphs structured Treatise on Febrile Diseases(Shang Han Lun,《伤寒论》)dataset and explore an optimal learning method represented with node attributes based o...Objective To construct symptom-formula-herb heterogeneous graphs structured Treatise on Febrile Diseases(Shang Han Lun,《伤寒论》)dataset and explore an optimal learning method represented with node attributes based on graph convolutional network(GCN).Methods Clauses that contain symptoms,formulas,and herbs were abstracted from Treatise on Febrile Diseases to construct symptom-formula-herb heterogeneous graphs,which were used to propose a node representation learning method based on GCN−the Traditional Chinese Medicine Graph Convolution Network(TCM-GCN).The symptom-formula,symptom-herb,and formula-herb heterogeneous graphs were processed with the TCM-GCN to realize high-order propagating message passing and neighbor aggregation to obtain new node representation attributes,and thus acquiring the nodes’sum-aggregations of symptoms,formulas,and herbs to lay a foundation for the downstream tasks of the prediction models.Results Comparisons among the node representations with multi-hot encoding,non-fusion encoding,and fusion encoding showed that the Precision@10,Recall@10,and F1-score@10 of the fusion encoding were 9.77%,6.65%,and 8.30%,respectively,higher than those of the non-fusion encoding in the prediction studies of the model.Conclusion Node representations by fusion encoding achieved comparatively ideal results,indicating the TCM-GCN is effective in realizing node-level representations of heterogeneous graph structured Treatise on Febrile Diseases dataset and is able to elevate the performance of the downstream tasks of the diagnosis model.展开更多
A bacterial cell surface display technique based on an ice nucleation protein has been employed for the development of live vaccine against viral infection. Due to its ubiquitous ability to invade host cells, Salmonel...A bacterial cell surface display technique based on an ice nucleation protein has been employed for the development of live vaccine against viral infection. Due to its ubiquitous ability to invade host cells, Salmonella typhimurium might be a good candidate for displaying viral antigens. We demonstrated the surface display of domain III of Japanese encephalitis virus E protein and the enhanced green fluorescent protein on S. typhimurium BRD509 using the ice nucleation protein. The effects of the motif in the ice nucleation protein on the effective display of integral protein were also investigated. The results showed that display motifs in the protein can target integral foreign protein on the surface of S. typhimurium BRD509. Moreover, recombinant strains with surface displayed viral proteins retained their invasiveness, suggesting that the recombinant S. typhimurium can be used as live vaccine vector for eliciting complete immunogenicity. The data may yield better understanding of the mechanism by which ice nucleation protein displays foreign proteins in the Salmonella strain.展开更多
Gegen Qinlian Decoction is one of the commonly used classical prescriptions,which consists of fourherbs:Gegen(Puerariae Lobatae Radix),Huangqin(Scutellariae Radix),Huanglian(Coptidis Rhizoma),and Zhigancao Glycyrrhiza...Gegen Qinlian Decoction is one of the commonly used classical prescriptions,which consists of fourherbs:Gegen(Puerariae Lobatae Radix),Huangqin(Scutellariae Radix),Huanglian(Coptidis Rhizoma),and Zhigancao Glycyrrhizae Radix et Rhizoma Praeparata cum Melle.The clinical application experience of Gegen Qinlian Decoction is as follows:first,according to Zhongjing Zhang's original text,heat distressing the large intestine with unresolved exterior syndrome is theoriginal meaningof Gegen Qinlian Decoction syndrome.In clinical practice,bacillary dysentery,gastrointestinal cold,etc.,belong to simultaneous exterior and interior disease,which are completely consistent with the original meaning of this prescription;second,the clinical digestive system diseases with exuberant heat of the large intestine as the core manifestation cannot be treated merely based on the exterior syndrome;third,due to the interior-exterior relationship between the lung and the large intestine and between the meridians,the use of Gegen(Puerariae Lobatae Radix),Huangqin(Scutellariae Radix),and Huanglian(Coptidis Rhizoma)can make the source of body clear,and the waste qi can be released and thepore can be easily opened,so this prescription can also be used for exogenous fever;fourth,with multidimensional comprehensive understanding of the syndrome,pathogenesis,symptoms and pharmacology,Gegen Qinlian Decoction has also been further applied to the treatment of hypertension,diabetes,etc.展开更多
基金New-Generation Artificial Intelligence-Major Program in the Sci-Tech Innovation 2030 Agenda from the Ministry of Science and Technology of China(2018AAA0102100)Hunan Provincial Department of Education key project(21A0250)The First Class Discipline Open Fund of Hunan University of Traditional Chinese Medicine(2022ZYX08)。
文摘Objective To construct symptom-formula-herb heterogeneous graphs structured Treatise on Febrile Diseases(Shang Han Lun,《伤寒论》)dataset and explore an optimal learning method represented with node attributes based on graph convolutional network(GCN).Methods Clauses that contain symptoms,formulas,and herbs were abstracted from Treatise on Febrile Diseases to construct symptom-formula-herb heterogeneous graphs,which were used to propose a node representation learning method based on GCN−the Traditional Chinese Medicine Graph Convolution Network(TCM-GCN).The symptom-formula,symptom-herb,and formula-herb heterogeneous graphs were processed with the TCM-GCN to realize high-order propagating message passing and neighbor aggregation to obtain new node representation attributes,and thus acquiring the nodes’sum-aggregations of symptoms,formulas,and herbs to lay a foundation for the downstream tasks of the prediction models.Results Comparisons among the node representations with multi-hot encoding,non-fusion encoding,and fusion encoding showed that the Precision@10,Recall@10,and F1-score@10 of the fusion encoding were 9.77%,6.65%,and 8.30%,respectively,higher than those of the non-fusion encoding in the prediction studies of the model.Conclusion Node representations by fusion encoding achieved comparatively ideal results,indicating the TCM-GCN is effective in realizing node-level representations of heterogeneous graph structured Treatise on Febrile Diseases dataset and is able to elevate the performance of the downstream tasks of the diagnosis model.
基金The Knowledge Innovation Program Key Project (KSCX1-YW-R-07)
文摘A bacterial cell surface display technique based on an ice nucleation protein has been employed for the development of live vaccine against viral infection. Due to its ubiquitous ability to invade host cells, Salmonella typhimurium might be a good candidate for displaying viral antigens. We demonstrated the surface display of domain III of Japanese encephalitis virus E protein and the enhanced green fluorescent protein on S. typhimurium BRD509 using the ice nucleation protein. The effects of the motif in the ice nucleation protein on the effective display of integral protein were also investigated. The results showed that display motifs in the protein can target integral foreign protein on the surface of S. typhimurium BRD509. Moreover, recombinant strains with surface displayed viral proteins retained their invasiveness, suggesting that the recombinant S. typhimurium can be used as live vaccine vector for eliciting complete immunogenicity. The data may yield better understanding of the mechanism by which ice nucleation protein displays foreign proteins in the Salmonella strain.
基金supported by the Project of Traditional Chinese Medicine Academic School Inheritance Workshop Construction of the National Administration of Traditional Chinese Medicine-YanjingLiu's Typhoid Fever School InheritanceWorkshop(LPGZS 2019-01)Projectof Chinese Medicine Master Inheritance Workshop of National Administration of Traditional Chinese Medicine-Qingguo Wang Inheritance Workshaop(2014011)the Sixth Batch of National Chinese Medicine Senior Experts Academic Experience Inheritance Project of National Administration of Traditional Chinese Medicine(2017-01).
文摘Gegen Qinlian Decoction is one of the commonly used classical prescriptions,which consists of fourherbs:Gegen(Puerariae Lobatae Radix),Huangqin(Scutellariae Radix),Huanglian(Coptidis Rhizoma),and Zhigancao Glycyrrhizae Radix et Rhizoma Praeparata cum Melle.The clinical application experience of Gegen Qinlian Decoction is as follows:first,according to Zhongjing Zhang's original text,heat distressing the large intestine with unresolved exterior syndrome is theoriginal meaningof Gegen Qinlian Decoction syndrome.In clinical practice,bacillary dysentery,gastrointestinal cold,etc.,belong to simultaneous exterior and interior disease,which are completely consistent with the original meaning of this prescription;second,the clinical digestive system diseases with exuberant heat of the large intestine as the core manifestation cannot be treated merely based on the exterior syndrome;third,due to the interior-exterior relationship between the lung and the large intestine and between the meridians,the use of Gegen(Puerariae Lobatae Radix),Huangqin(Scutellariae Radix),and Huanglian(Coptidis Rhizoma)can make the source of body clear,and the waste qi can be released and thepore can be easily opened,so this prescription can also be used for exogenous fever;fourth,with multidimensional comprehensive understanding of the syndrome,pathogenesis,symptoms and pharmacology,Gegen Qinlian Decoction has also been further applied to the treatment of hypertension,diabetes,etc.
