Machine learning approach to gene essentiality prediction: a review

O Aromolaran, D Aromolaran, I Isewon… - Briefings in …, 2021 - academic.oup.com
Essential genes are critical for the growth and survival of any organism. The machine
learning approach complements the experimental methods to minimize the resources …

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 …

Based on network pharmacology to explore the molecular targets and mechanisms of Gegen Qinlian decoction for the treatment of ulcerative colitis

M Wei, H Li, Q Li, Y Qiao, Q Ma, R **e… - BioMed Research …, 2020 - Wiley Online Library
Background. Gegen Qinlian (GGQL) decoction is a common Chinese herbal compound for
the treatment of ulcerative colitis (UC). In this study, we aimed to identify its molecular target …

CentiServer: a comprehensive resource, web-based application and R package for centrality analysis

M Jalili, A Salehzadeh-Yazdi, Y Asgari, SS Arab… - PloS one, 2015 - journals.plos.org
Various disciplines are trying to solve one of the most noteworthy queries and broadly used
concepts in biology, essentiality. Centrality is a primary index and a promising method for …

Exploring the molecular targets of fingolimod and siponimod for treating the impaired cognition of schizophrenia using network pharmacology and molecular docking

C Li, C Zhuo, X Ma, R Li, X Chen, Y Li, Q Zhang… - Schizophrenia, 2024 - nature.com
The treatment of cognitive impairment in schizophrenia is an unaddressed need due to the
absence of novel treatments. Recent studies demonstrated that fingolimod and siponimod …

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 …

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 …

UDoNC: an algorithm for identifying essential proteins based on protein domains and protein-protein interaction networks

W Peng, J Wang, Y Cheng, Y Lu… - IEEE/ACM transactions …, 2014 - ieeexplore.ieee.org
Prediction of essential proteins which are crucial to an organism's survival is important for
disease analysis and drug design, as well as the understanding of cellular life. The majority …

Computational approaches for prioritizing candidate disease genes based on PPI networks

W Lan, J Wang, M Li, W Peng… - Tsinghua Science and …, 2015 - ieeexplore.ieee.org
With the continuing development and improvement of genome-wide techniques, a great
number of candidate genes are discovered. How to identify the most likely disease genes …