Effect of disease-associated SLC9A9 mutations on protein–protein interaction networks: implications for molecular mechanisms for ADHD and autism

2019 ◽  
Vol 11 (1) ◽  
pp. 91-105 ◽  
Author(s):  
Yanli Zhang-James ◽  
Marc Vaudel ◽  
Olav Mjaavatten ◽  
Frode S. Berven ◽  
Jan Haavik ◽  
...  
Keyword(s):  
Protein Interaction ◽  
Molecular Mechanisms ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Networks

scholarly journals ACE2 Protein-Protein Interaction Networks Reveal Potential Druggable Targets For SARS-CoV-2

2021 ◽  
Author(s):  
Qiaoxi Xia ◽  
Xiao Zhou ◽  
Mantong Chen ◽  
Ling Lin ◽  
Yan Zhao ◽  
...  
Keyword(s):  
Protein Interaction ◽  
Molecular Mechanisms ◽  
Expression Patterns ◽  
Biological Response ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Host Cells ◽  
Interacting Proteins ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Networks

Abstract Background: The novel coronavirus SARS-CoV-2 pandemic has infected more than 130 million people, killed over 2.3 million so far. Currently, no effective drugs are available to treat this infectious disease, due to limited knowledge of the molecular mechanisms of SARS-CoV-2 infection. ACE2 (angiotensin I converting enzyme 2) has long been identified as the major receptor for coronavirus entry the host cells. Methods: In this study, we constructed the protein-protein interaction networks (PPIN) based on ACE2 and its interacting proteins, considering with the expression alternation and co-expression relationship. The potential drugs targeting the proteins in the PPIN were explored.Results: ACE2 and its interacting proteins AAMP and HRAS are obviously increased, and their PPIN show distinguishing expression patterns during the COVID-19 progression. At least six pathways are activated for the host cell in the response to the virus. Moreover, drug-target networks were built to provide important clues to block ACE2 and its interacting proteins. Except the reported four drugs for ACE2, its interacting protein CALM1 and HRAS are great potentially druggable. We also considered the path initiated from ACE2 to nucleus by cascades of interaction, especially for the transcription factors in the PPIN which are also druggable.Conclusion: In summary, this study provides new insight into the disruption of the biological response to virus mediated by ACE2, but also its cascade interacting proteins when considering of PPIN.

scholarly journals Transcriptome Profiling Based on Different Time Points After Hatching Provides a Core Set of Gene Resource for Understanding Larval Immune Response Mechanisms Against Vibrio anguillarum Infection in Amphioctopus fangsiao

2021 ◽  
Vol 8 ◽  
Author(s):  
Xiaokai Bao ◽  
Yan Li ◽  
Jianbai Zhang ◽  
Xipan Chen ◽  
Xiaohui Xu ◽  
...  
Keyword(s):  
Immune Response ◽  
Protein Interaction ◽  
Molecular Mechanisms ◽  
Vibrio Anguillarum ◽  
Immune Defense ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Time Points ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Networks

Immune defense systems are indispensable for living organisms. Within an immune network, problems with any given link can impact the normal life activities of an organism. Amphioctopus fangsiao is a cephalopod that exists widely throughout the world’s oceans. Because of its nervous system and locomotive organs, it has become increasingly studied in recent years. Vibrio anguillarum is one of the most common pathogenic bacteria in aquaculture organisms. It is highly infectious and can infect almost all aquaculture organisms. V. anguillarum infection can cause many adverse biological phenomena, including tissue bleeding. Study the immune response after V. anguillarum infection would help us to understand the molecular mechanisms of immune response in aquaculture organisms. In this research, we infected the primary incubation A. fangsiao with V. anguillarum for 24 h. We analyzed gene expression in A. fangsiao larvae via transcriptome profiles at 0, 4, 12, and 24 h after hatching, and 1,385, 734, and 6,109 differentially expressed genes (DEGs) were identified at these three time points. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were used to identify immune-related DEGs. Protein–protein interaction networks were constructed to examine interactions between immune-related genes. Twenty hub genes involved in multiple KEGG signaling pathways or with multiple protein–protein interaction relationships were identified, and their differential expression verified by quantitative RT-PCR. We first studied V. anguillarum infection of A. fangsiao larvae by means of protein–protein interaction networks. The results provide valuable genetic resources for understanding immunity in molluscan larvae. These data serve as a theoretical basis for the artificial breeding of A. fangsiao.

scholarly journals ACE2 Protein-protein Interaction Networks Reveal Potential Druggable Targets for SARS-CoV-2

2020 ◽  
Author(s):  
Qiaoxi Xia ◽  
Mantong Chen ◽  
Xiao Zhou ◽  
Ling Lin ◽  
Yan Zhao ◽  
...  
Keyword(s):  
Protein Interaction ◽  
Molecular Mechanisms ◽  
Expression Patterns ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Host Cells ◽  
Interacting Proteins ◽  
Expression Change ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Networks

Abstract Background The novel coronavirus SARS-CoV-2 pandemic has infected more than 10 million people, killed over 500,000 so far. Currently, no effective drugs are available to treat this infectious disease, due to limited knowledge of the molecular mechanisms of SARS-CoV-2 infection. ACE2 (angiotensin I converting enzyme 2) has long been identified as the major receptor for coronavirus entry the host cells. Methods In this study, we constructed the protein-protein interaction networks (PPIN) based on ACE2 and its interacting proteins, combined with the expression change and co-expression relationship. The potential drugs targeting the proteins in the PPIN were explored.Results ACE2 and its interacting proteins AAMP and HRAS are obviously increased, and their PPIN show distinguishing expression patterns during the COVID-19 progression. At least six pathways are activated for the host cell in the response to the virus. Moreover, drug-target networks were built to provide important clues to block ACE2 and its interacting proteins. Except the reported four drugs for ACE2, its interacting protein CALM1 and HRAS are great potentially druggable. We also considered the path initiated from ACE2 to nucleus by cascades of interaction, especially for the transcription factors in the PPIN which are also druggable. Conclusion In summary, this study provides new insight into the disruption of the biological response to virus mediated by ACE2, but also its cascade interacting proteins when considering of PPIN.

Establishing a protein-protein interaction networks for hypertrophic cardiomyopathy

2011 ◽  
Vol 44 (2) ◽  
pp. e47-e48
Author(s):  
Chia-Chun Lu ◽  
Ching-Shiun Chang ◽  
Ming-Ju Tsai ◽  
Yu-Shan Chen ◽  
Yueh Chen ◽  
...  
Keyword(s):  
Hypertrophic Cardiomyopathy ◽  
Protein Interaction ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Networks
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