Complex brain network analysis and its applications to brain disorders: a survey

J Liu, M Li, Y Pan, W Lan, R Zheng, FX Wu… - …, 2017 - Wiley Online Library
It is well known that most brain disorders are complex diseases, such as Alzheimer's
disease (AD) and schizophrenia (SCZ). In general, brain regions and their interactions can …

Network-based methods for predicting essential genes or proteins: a survey

X Li, W Li, M Zeng, R Zheng, M Li - Briefings in bioinformatics, 2020 - academic.oup.com
Genes that are thought to be critical for the survival of organisms or cells are called essential
genes. The prediction of essential genes and their products (essential proteins) is of great …

CytoNCA: a cytoscape plugin for centrality analysis and evaluation of protein interaction networks

Y Tang, M Li, J Wang, Y Pan, FX Wu - Biosystems, 2015 - Elsevier
Background and scope Nowadays, centrality analysis has become a principal method for
identifying essential proteins in biological networks. Here we present CytoNCA, a Cytoscape …

Predicting essential proteins based on weighted degree centrality

X Tang, J Wang, J Zhong, Y Pan - IEEE/ACM Transactions on …, 2013 - ieeexplore.ieee.org
Essential proteins are vital for an organism's viability under a variety of conditions. There are
many experimental and computational methods developed to identify essential proteins …

A deep learning framework for identifying essential proteins by integrating multiple types of biological information

M Zeng, M Li, Z Fei, FX Wu, Y Li… - … /ACM transactions on …, 2019 - ieeexplore.ieee.org
Computational methods including centrality and machine learning-based methods have
been proposed to identify essential proteins for understanding the minimum requirements of …

Computational methods for identifying the critical nodes in biological networks

X Liu, Z Hong, J Liu, Y Lin… - Briefings in …, 2020 - academic.oup.com
A biological network is complex. A group of critical nodes determines the quality and state of
such a network. Increasing studies have shown that diseases and biological networks are …

United neighborhood closeness centrality and orthology for predicting essential proteins

G Li, M Li, J Wang, Y Li, Y Pan - IEEE/ACM transactions on …, 2018 - ieeexplore.ieee.org
Identifying essential proteins plays an important role in disease study, drug design, and
understanding the minimal requirement for cellular life. Computational methods for essential …

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 topology potential-based method for identifying essential proteins from PPI networks

M Li, Y Lu, J Wang, FX Wu, Y Pan - IEEE/ACM transactions on …, 2014 - ieeexplore.ieee.org
Essential proteins are indispensable for cellular life. It is of great significance to identify
essential proteins that can help us understand the minimal requirements for cellular life and …

United complex centrality for identification of essential proteins from PPI networks

M Li, Y Lu, Z Niu, FX Wu - IEEE/ACM transactions on …, 2015 - ieeexplore.ieee.org
Essential proteins are indispensable for the survival or reproduction of an organism.
Identification of essential proteins is not only necessary for the understanding of the minimal …