AIM:To understand the complex reaction of gastric inflammation induced by Helicobacter pylori(H pylori) in a systematic manner using a protein interaction network. METHODS:The expression of genes significantly changed...AIM:To understand the complex reaction of gastric inflammation induced by Helicobacter pylori(H pylori) in a systematic manner using a protein interaction network. METHODS:The expression of genes significantly changed on microarray during H pylori infection was scanned from the web literary database and translated into proteins.A network of protein interactions was constructed by searching the primary interactions of selected proteins.The constructed network was mathematically analyzed and its biological function was examined.In addition,the nodes on the network were checked to determine if they had any further functional importance or relation to other proteins by extending them. RESULTS:The scale-free network showing the relationship between inflammation and carcinogenesis was constructed.Mathematical analysis showed hub and bottleneck proteins,and these proteins were mostly related to immune response.The network contained pathways and proteins related to H pylori infection,such as the JAK-STAT pathway triggered by interleukins.Activation of nuclear factor (NF)-κB,TLR4,and other proteins known to function as core proteins of immune response were also found. These immune-related proteins interacted on the network with pathways and proteins related to the cell cycle,cell maintenance and proliferation,andtranscription regulators such as BRCA1,FOS,REL,and zinc finger proteins.The extension of nodes showed interactions of the immune proteins with cancer- related proteins.One extended network,the core network,a summarized form of the extended network, and cell pathway model were constructed. CONCLUSION:Immune-related proteins activated by H pylori infection interact with proto-oncogene proteins.The hub and bottleneck proteins are potential drug targets for gastric inflammation and cancer.展开更多
The gastric mucosa separates the underlying tissue from the vast array of antigens that traffic through the stomach lumen. While the extreme pH of this environment is essential in aiding the activation of enzymes and ...The gastric mucosa separates the underlying tissue from the vast array of antigens that traffic through the stomach lumen. While the extreme pH of this environment is essential in aiding the activation of enzymes and food digestion, it also renders the gastric epithelium free from bacterial colonization, with the exception of one important human pathogen, Hpylori. This bacterium has developed mechanisms to survive the harsh environment of the stomach, actively move through the mucosal layer, attach to the epithelium, evade immune responses, and achieve persistent colonization. While a hallmark of this infection is a marked inflammatory response with the infiltration of various immune cells into the infected gastric mucosa, the host immune response is unable to clear the infection and may actually contribute to the associated pathogenesis. Here, we review the host responses involved during infection with Hpylori and how they are influenced by this bacterium.展开更多
The Rydberg states of neutral atoms are strongly polarisable and possess long lifetimes because of high energies which can lead to strong and long range dipole-dipole interactions.The energy levels corresponding to th...The Rydberg states of neutral atoms are strongly polarisable and possess long lifetimes because of high energies which can lead to strong and long range dipole-dipole interactions.The energy levels corresponding to these states are shifted because of dipole-dipole interactions and can be used to block transitions of more than one excitation in the Rydberg regime.This reputed Rydberg blockade is obtained when the excitation is shifted out of resonance by these interactions.Electromagnetically induced transparency(EIT)is sensitive to a small detuning.At large distances,up to several micrometers,the interactions can interrupt the EIT consequence.Herein we investigate a novel scheme based on EIT and Rydberg blockade and performed a simulation of a controlled-NOT(C-NOT)quantum gate which is critical for quantum computation by using neutral atoms.展开更多
文摘AIM:To understand the complex reaction of gastric inflammation induced by Helicobacter pylori(H pylori) in a systematic manner using a protein interaction network. METHODS:The expression of genes significantly changed on microarray during H pylori infection was scanned from the web literary database and translated into proteins.A network of protein interactions was constructed by searching the primary interactions of selected proteins.The constructed network was mathematically analyzed and its biological function was examined.In addition,the nodes on the network were checked to determine if they had any further functional importance or relation to other proteins by extending them. RESULTS:The scale-free network showing the relationship between inflammation and carcinogenesis was constructed.Mathematical analysis showed hub and bottleneck proteins,and these proteins were mostly related to immune response.The network contained pathways and proteins related to H pylori infection,such as the JAK-STAT pathway triggered by interleukins.Activation of nuclear factor (NF)-κB,TLR4,and other proteins known to function as core proteins of immune response were also found. These immune-related proteins interacted on the network with pathways and proteins related to the cell cycle,cell maintenance and proliferation,andtranscription regulators such as BRCA1,FOS,REL,and zinc finger proteins.The extension of nodes showed interactions of the immune proteins with cancer- related proteins.One extended network,the core network,a summarized form of the extended network, and cell pathway model were constructed. CONCLUSION:Immune-related proteins activated by H pylori infection interact with proto-oncogene proteins.The hub and bottleneck proteins are potential drug targets for gastric inflammation and cancer.
基金the National Institutes of Health Grants DK50669 DK56338 EB was funded by the National Institutes of Health T32 AI007536-06 Training Grant
文摘The gastric mucosa separates the underlying tissue from the vast array of antigens that traffic through the stomach lumen. While the extreme pH of this environment is essential in aiding the activation of enzymes and food digestion, it also renders the gastric epithelium free from bacterial colonization, with the exception of one important human pathogen, Hpylori. This bacterium has developed mechanisms to survive the harsh environment of the stomach, actively move through the mucosal layer, attach to the epithelium, evade immune responses, and achieve persistent colonization. While a hallmark of this infection is a marked inflammatory response with the infiltration of various immune cells into the infected gastric mucosa, the host immune response is unable to clear the infection and may actually contribute to the associated pathogenesis. Here, we review the host responses involved during infection with Hpylori and how they are influenced by this bacterium.
基金the Higher Education Commission (HEC) of Pakistan for providing financial support
文摘The Rydberg states of neutral atoms are strongly polarisable and possess long lifetimes because of high energies which can lead to strong and long range dipole-dipole interactions.The energy levels corresponding to these states are shifted because of dipole-dipole interactions and can be used to block transitions of more than one excitation in the Rydberg regime.This reputed Rydberg blockade is obtained when the excitation is shifted out of resonance by these interactions.Electromagnetically induced transparency(EIT)is sensitive to a small detuning.At large distances,up to several micrometers,the interactions can interrupt the EIT consequence.Herein we investigate a novel scheme based on EIT and Rydberg blockade and performed a simulation of a controlled-NOT(C-NOT)quantum gate which is critical for quantum computation by using neutral atoms.
