Properties of essential genes in the protein-protein interaction network of Escherichia coli from the perspective of network theory

2017 ◽  
Vol 17 (1) ◽  
pp. 209-216
Author(s):  
G.C. Herrera-Almarza ◽  
A.J. Alvarez-Socorro ◽  
L.A. González-Díaz
Keyword(s):  
Escherichia Coli ◽  
Protein Interaction ◽  
Protein Interaction Network ◽  
Network Theory ◽  
Interaction Network ◽  
Essential Genes ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Network

scholarly journals Protein-protein interaction network topology as a measure of bacterial plasmid-chromosome co-evolution

2019 ◽  
Author(s):  
Nghia T.H. Tran ◽  
Arun Decano ◽  
Tim Downing ◽  
Alexander D. Rahm
Keyword(s):  
Escherichia Coli ◽  
Protein Interaction ◽  
Network Topology ◽  
Protein Interaction Network ◽  
Interaction Network ◽  
Gene Interactions ◽  
Protein Protein Interaction ◽  
Chromosome Gene ◽  
Bacterial Plasmid ◽  
Protein Protein Interaction Network

AbstractIn this work, we investigate the evolvability of plasmids by examining the topology of plasmid-chromosome gene interactions in Escherichia coli ST131. We discover a convergence of the ratio of non-trivial loops per protein-protein interaction, which allows us to introduce a new invariant of bacterial PPINs: the indirect connectivity value.

scholarly journals Identification of Novel Choroidal Neovascularization-Related Genes Using Laplacian Heat Diffusion Algorithm

2021 ◽  
Vol 2021 ◽  
pp. 1-10
Author(s):  
Minjie Sheng ◽  
Haiying Cai ◽  
Ming Cheng ◽  
Jing Li ◽  
Jian Zhang ◽  
...  
Keyword(s):  
Choroidal Neovascularization ◽  
Protein Interaction ◽  
Protein Interaction Network ◽  
Vision Loss ◽  
Interaction Network ◽  
Essential Genes ◽  
Heat Diffusion ◽  
Eye Disease ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Network

Choroidal neovascularization (CNV) is a type of eye disease that can cause vision loss. In recent years, many studies have attempted to investigate the major pathological processes and molecular pathogenic mechanisms of CNV. Because many diseases are related to genes, the genes associated with CNV need to be identified. In this study, we proposed a network-based approach for identifying novel CNV-associated genes. To execute such method, we first employed a protein-protein interaction network reported in STRING. Then, we applied a network diffusion algorithm, Laplacian heat diffusion, on this network by selecting validated CNV-related genes as the seed nodes. As a result, some novel genes that had unknown but strong relationships with validated genes were identified. Furthermore, we used a screening procedure to extract the most essential genes. Eleven latent CNV-related genes were finally obtained. Extensive analyses were performed to confirm that these genes are novel CNV-related genes.

scholarly journals Diabetic Retinopathy and Laser Therapy in Rats: A Protein-Protein Interaction Network Analysis

2017 ◽  
Vol 8 (Suppl 1) ◽  
pp. S20-S21 ◽  
Author(s):  
Akram Safaei ◽  
Mostafa Rezaei Tavirani ◽  
Mona Zamanian Azodi ◽  
Alireza Lashay ◽  
Seyed Farzad Mohammadi ◽  
...  
Keyword(s):  
Diabetic Retinopathy ◽  
Network Analysis ◽  
Laser Therapy ◽  
Protein Interaction ◽  
Protein Interaction Network ◽  
Interaction Network ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Network
Sign in / Sign up

Export Citation Format

Share Document