ObjectiveThe aim of the study is to explore the molecular mechanism of Yadanzi(Brucea javanica)in the treatment of glioblastoma(GBM)by using the methods of bioinformatics and network pharmacology.Methods The Tradition...ObjectiveThe aim of the study is to explore the molecular mechanism of Yadanzi(Brucea javanica)in the treatment of glioblastoma(GBM)by using the methods of bioinformatics and network pharmacology.Methods The Traditional Chinese Medicine Systems Pharmacology Database and Analysis Platform(TCMSP)and literature retrieval method were applied to obtain the active ingredients of Yadanzi(Brucea javanica),and to predict the relevant targets of the active ingredients.The GBM-related targets were retrieved and screened through the Gene Expression Profling Interactive Analysis(GEPIA)database,and mapped to each other with the targets of the components of Yadanzi(Brucea javanica)to obtain the intersection targets.The GBM differentially expressed gene targets were imported into the String database to obtain the protein interaction relationship,the Cytoscape software was used to draw the protein interaction network,the Cytobba and MCODE plug-ins were used to screen the core genes and important protein interaction modules,and the GEPIA database was applied to make survival analysis of the core genes.The network map of“active ingredients-targets”was constructed through the Cytoscape 3.6.1 software.Gene Ontology(GO)biological function enrichment analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG)signaling pathway enrichment analysis for GBM differentially expressed genes were performed through the DAVID database.ResultsThrough TCMSP and literature retrieval,23 potential active ingredients and 129 related targets were obtained from Yadanzi(Brucea javanica).In the GEPIA database,247 GBM differentially expressed genes were screened,including 113 upregulated genes and 134 downregulated genes.After mapping with the targets related to the active ingredients of Yadanzi(Brucea javanica),six intersection targets were obtained,that is,the potential action targets of Yadanzi(Brucea javanica)in treating GBM,including MMP2,HMOX1,BIRC5,EGFR,CCNB2,and TOP2A.Cytoscape software was applied to build an“active ingredient-action target”network.Two active ingredients and five action targets of β-sitosterol(BS)and luteolin were found,and the targets were mainly concentrated in BS.It was found by KEGG pathway enrichment analysis that GBM differentially expressed genes were mainly involved in signaling pathways related to Staphylococcus aureus infection,phagosome formation,tuberculosis and systemic lupus erythematosus and other infectious and autoimmune diseases.It was found by GO enrichment analysis that the GBM differentially expressed genes mainly involved such biological processes(BP)as the processing and presentation of exogenous antigenic peptides and polysaccharide antigens through MHC Il molecules,y-interferon-mediated signaling pathways,extracellular matrix composition,and chemical synapses transmission;it involved cellular components such as cell junctions,axon terminal buttons,extracellular space,vesicle membranes for endocytosis,and MHC Il protein complexes;molecular functions such as calcium-mediated ionic protein binding,MHC Il molecular receptor activity,immunoglobulin binding,and phospholipase inhibitor activity were also involved.Survival analysis was conducted by GEPIA on the top 37 core targets in degree value,and a total of five genes related to GBM prognosis were obtained.Among them,FN1 and MMP2 were highly expressed while GABRD(v-aminobutyric acid A receptor delta subunit),RBFOX1,and SLC6A7 were expressed at a low level in cancer patients.Conclusion The pathogenesis of GBM is closely related to the human immune system,and BS and luteolin may be the main material basis of Yadanzi(Brucea javanica)for the treatment of GBM and the improvement of prognosis.The molecular mechanism may be related to the physical barrier formed by destroying the tumor cell stromal 68 Treatment of Glioblastoma Based on Bioinformatics and Network Pharmacology Zhao,Si.molecules and its involvement in tumor immune response.展开更多
This paper presents a method for assessing the influence of the interaction environment of an organization. The interaction environment of an organization is composed of three elements: (1) the physical structure o...This paper presents a method for assessing the influence of the interaction environment of an organization. The interaction environment of an organization is composed of three elements: (1) the physical structure of the organization, including numbers of buildings, floors, common gathering areas, size, industry, and physical layout; (2) the information structure, consisting of the numbers and types of communication channels in the organization; and (3) the social structure, consisting of both individual-level assessments of the social environment of the organization as well as the organizational attempts to create a more social environment. This assessment tool has been tested in a large-scale study of organ donation campaigns in 46 organizations. Findings from this earlier test of the assessment tool demonstrate that interaction environment influences the way people communicate about, seek information about, and make decisions about health-related topics in organizations. Additionally, the individual elements of the interaction environment work in complex ways and also influence communication patterns and knowledge about health information. This paper details the procedures for using this assessment tool, methods for analyzing the findings, limitations of the tool, and areas in need of refinements and further researches.展开更多
Information is an integral part of the Universe. By its physical essence information is heterogeneity of matter and energy. Therefore information is inseparably connected with matter and energy. The universal measure ...Information is an integral part of the Universe. By its physical essence information is heterogeneity of matter and energy. Therefore information is inseparably connected with matter and energy. The universal measure of information in physical heterogeneity is the Shannon information entropy. An information approach along with a physical one allows to obtain new, sometimes more general data in relation to data obtained on the ground of physical rules only. The results presented in this paper show the effectiveness of informational approach for studying the interactions in the Universe. The paper shows that, along with the physical interactions the gravitational, electromagnetic, strong, weak interactions exists fifth type of fundamental interactions--information interaction, whose magnitude is not dependent on distance. The existence of information interaction is determined by the entanglement of quantum states, of quantum subsystems. The magnitude of information interaction is measured in bits.展开更多
文摘ObjectiveThe aim of the study is to explore the molecular mechanism of Yadanzi(Brucea javanica)in the treatment of glioblastoma(GBM)by using the methods of bioinformatics and network pharmacology.Methods The Traditional Chinese Medicine Systems Pharmacology Database and Analysis Platform(TCMSP)and literature retrieval method were applied to obtain the active ingredients of Yadanzi(Brucea javanica),and to predict the relevant targets of the active ingredients.The GBM-related targets were retrieved and screened through the Gene Expression Profling Interactive Analysis(GEPIA)database,and mapped to each other with the targets of the components of Yadanzi(Brucea javanica)to obtain the intersection targets.The GBM differentially expressed gene targets were imported into the String database to obtain the protein interaction relationship,the Cytoscape software was used to draw the protein interaction network,the Cytobba and MCODE plug-ins were used to screen the core genes and important protein interaction modules,and the GEPIA database was applied to make survival analysis of the core genes.The network map of“active ingredients-targets”was constructed through the Cytoscape 3.6.1 software.Gene Ontology(GO)biological function enrichment analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG)signaling pathway enrichment analysis for GBM differentially expressed genes were performed through the DAVID database.ResultsThrough TCMSP and literature retrieval,23 potential active ingredients and 129 related targets were obtained from Yadanzi(Brucea javanica).In the GEPIA database,247 GBM differentially expressed genes were screened,including 113 upregulated genes and 134 downregulated genes.After mapping with the targets related to the active ingredients of Yadanzi(Brucea javanica),six intersection targets were obtained,that is,the potential action targets of Yadanzi(Brucea javanica)in treating GBM,including MMP2,HMOX1,BIRC5,EGFR,CCNB2,and TOP2A.Cytoscape software was applied to build an“active ingredient-action target”network.Two active ingredients and five action targets of β-sitosterol(BS)and luteolin were found,and the targets were mainly concentrated in BS.It was found by KEGG pathway enrichment analysis that GBM differentially expressed genes were mainly involved in signaling pathways related to Staphylococcus aureus infection,phagosome formation,tuberculosis and systemic lupus erythematosus and other infectious and autoimmune diseases.It was found by GO enrichment analysis that the GBM differentially expressed genes mainly involved such biological processes(BP)as the processing and presentation of exogenous antigenic peptides and polysaccharide antigens through MHC Il molecules,y-interferon-mediated signaling pathways,extracellular matrix composition,and chemical synapses transmission;it involved cellular components such as cell junctions,axon terminal buttons,extracellular space,vesicle membranes for endocytosis,and MHC Il protein complexes;molecular functions such as calcium-mediated ionic protein binding,MHC Il molecular receptor activity,immunoglobulin binding,and phospholipase inhibitor activity were also involved.Survival analysis was conducted by GEPIA on the top 37 core targets in degree value,and a total of five genes related to GBM prognosis were obtained.Among them,FN1 and MMP2 were highly expressed while GABRD(v-aminobutyric acid A receptor delta subunit),RBFOX1,and SLC6A7 were expressed at a low level in cancer patients.Conclusion The pathogenesis of GBM is closely related to the human immune system,and BS and luteolin may be the main material basis of Yadanzi(Brucea javanica)for the treatment of GBM and the improvement of prognosis.The molecular mechanism may be related to the physical barrier formed by destroying the tumor cell stromal 68 Treatment of Glioblastoma Based on Bioinformatics and Network Pharmacology Zhao,Si.molecules and its involvement in tumor immune response.
文摘This paper presents a method for assessing the influence of the interaction environment of an organization. The interaction environment of an organization is composed of three elements: (1) the physical structure of the organization, including numbers of buildings, floors, common gathering areas, size, industry, and physical layout; (2) the information structure, consisting of the numbers and types of communication channels in the organization; and (3) the social structure, consisting of both individual-level assessments of the social environment of the organization as well as the organizational attempts to create a more social environment. This assessment tool has been tested in a large-scale study of organ donation campaigns in 46 organizations. Findings from this earlier test of the assessment tool demonstrate that interaction environment influences the way people communicate about, seek information about, and make decisions about health-related topics in organizations. Additionally, the individual elements of the interaction environment work in complex ways and also influence communication patterns and knowledge about health information. This paper details the procedures for using this assessment tool, methods for analyzing the findings, limitations of the tool, and areas in need of refinements and further researches.
文摘Information is an integral part of the Universe. By its physical essence information is heterogeneity of matter and energy. Therefore information is inseparably connected with matter and energy. The universal measure of information in physical heterogeneity is the Shannon information entropy. An information approach along with a physical one allows to obtain new, sometimes more general data in relation to data obtained on the ground of physical rules only. The results presented in this paper show the effectiveness of informational approach for studying the interactions in the Universe. The paper shows that, along with the physical interactions the gravitational, electromagnetic, strong, weak interactions exists fifth type of fundamental interactions--information interaction, whose magnitude is not dependent on distance. The existence of information interaction is determined by the entanglement of quantum states, of quantum subsystems. The magnitude of information interaction is measured in bits.