Detecting essential proteins based on network topology, gene expression data, and gene ontology information

W Zhang, J Xu, Y Li, X Zou - IEEE/ACM transactions on …, 2016 - ieeexplore.ieee.org
The identification of essential proteins in protein-protein interaction (PPI) networks is of great
significance for understanding cellular processes. With the increasing availability of large …

Identifying essential proteins from active PPI networks constructed with dynamic gene expression

Q Xiao, J Wang, X Peng, F Wu, Y Pan - BMC genomics, 2015 - Springer
Essential proteins are vitally important for cellular survival and development, and identifying
essential proteins is very meaningful research work in the post-genome era. Rapid increase …

Prediction of essential proteins using topological properties in GO-pruned PPI network based on machine learning methods

W Kim - Tsinghua Science and Technology, 2012 - ieeexplore.ieee.org
The prediction of essential proteins, the minimal set required for a living cell to support
cellular life, is an important task to understand the cellular processes of an organism. Fast …

A novel essential protein identification method based on PPI networks and gene expression data

J Zhong, C Tang, W Peng, M Xie, Y Sun, Q Tang… - BMC …, 2021 - Springer
Background Some proposed methods for identifying essential proteins have better results by
using biological information. Gene expression data is generally used to identify essential …

A new method for identifying essential proteins by measuring co-expression and functional similarity

W Zhang, J Xu, X Li, X Zou - IEEE transactions on …, 2016 - ieeexplore.ieee.org
Identification of essential proteins is a fundamental task for understanding cellular life. With
the increasing availability of high-throughput data, which enable the identification of …

A new method for the discovery of essential proteins

X Zhang, J Xu, W Xiao - PloS one, 2013 - journals.plos.org
Background Experimental methods for the identification of essential proteins are always
costly, time-consuming, and laborious. It is a challenging task to find protein essentiality only …

Essential protein detection by random walk on weighted protein-protein interaction networks

B Xu, J Guan, Y Wang, Z Wang - IEEE/ACM Transactions on …, 2017 - ieeexplore.ieee.org
Essential proteins are critical to the development and survival of cells. Identification of
essential proteins is helpful for understanding the minimal set of required genes in a living …

Identification of essential proteins based on edge features and the fusion of multiple-source biological information

P Liu, C Liu, Y Mao, J Guo, F Liu, W Cai, F Zhao - BMC bioinformatics, 2023 - Springer
Background A major current focus in the analysis of protein–protein interaction (PPI) data is
how to identify essential proteins. As massive PPI data are available, this warrants the …

A new essential protein discovery method based on the integration of protein-protein interaction and gene expression data

M Li, H Zhang, J Wang, Y Pan - BMC systems biology, 2012 - Springer
Background Identification of essential proteins is always a challenging task since it requires
experimental approaches that are time-consuming and laborious. With the advances in high …

Identification of essential proteins based on ranking edge-weights in protein-protein interaction networks

Y Wang, H Sun, W Du, E Blanzieri, G Viero, Y Xu… - PloS one, 2014 - journals.plos.org
Essential proteins are those that are indispensable to cellular survival and development.
Existing methods for essential protein identification generally rely on knock-out experiments …