Network pharmacology: curing causal mechanisms instead of treating symptoms

C Nogales, ZM Mamdouh, M List, C Kiel… - Trends in …, 2022 - cell.com
For complex diseases, most drugs are highly ineffective, and the success rate of drug
discovery is in constant decline. While low quality, reproducibility issues, and translational …

Artificial intelligence in cancer target identification and drug discovery

Y You, X Lai, Y Pan, H Zheng, J Vera, S Liu… - … and Targeted Therapy, 2022 - nature.com
Artificial intelligence is an advanced method to identify novel anticancer targets and discover
novel drugs from biology networks because the networks can effectively preserve and …

Identifying drug–target interactions based on graph convolutional network and deep neural network

T Zhao, Y Hu, LR Valsdottir, T Zang… - Briefings in …, 2021 - academic.oup.com
Identification of new drug–target interactions (DTIs) is an important but a time-consuming
and costly step in drug discovery. In recent years, to mitigate these drawbacks, researchers …

A mini review of node centrality metrics in biological networks

M Wang, H Wang, H Zheng - International Journal of Network …, 2022 - pure.ulster.ac.uk
The diversity of nodes in a complex network causes each node to have varying significance,
and the important nodes often have a significant impact on the structure and function of the …

Controlling complex networks with complex nodes

RM D'Souza, M di Bernardo, YY Liu - Nature Reviews Physics, 2023 - nature.com
Real-world networks often consist of millions of heterogenous elements that interact at
multiple timescales and length scales. The fields of statistical physics and control theory both …

Control principles of complex systems

YY Liu, AL Barabási - Reviews of Modern Physics, 2016 - APS
A reflection of our ultimate understanding of a complex system is our ability to control its
behavior. Typically, control has multiple prerequisites: it requires an accurate map of the …

Computational network biology: data, models, and applications

C Liu, Y Ma, J Zhao, R Nussinov, YC Zhang, F Cheng… - Physics Reports, 2020 - Elsevier
Biological entities are involved in intricate and complex interactions, in which uncovering the
biological information from the network concepts are of great significance. Benefiting from …

[HTML][HTML] Network resilience

X Liu, D Li, M Ma, BK Szymanski, HE Stanley, J Gao - Physics Reports, 2022 - Elsevier
Many systems on our planet shift abruptly and irreversibly from the desired state to an
undesired state when forced across a “tipping point”. Some examples are mass extinctions …

Human gene essentiality

I Bartha, J Di Iulio, JC Venter, A Telenti - Nature Reviews Genetics, 2018 - nature.com
A gene can be defined as essential when loss of its function compromises viability of the
individual (for example, embryonic lethality) or results in profound loss of fitness. At the …

Structure-based control of complex networks with nonlinear dynamics

JGT Zañudo, G Yang, R Albert - Proceedings of the …, 2017 - National Acad Sciences
What can we learn about controlling a system solely from its underlying network structure?
Here we adapt a recently developed framework for control of networks governed by a broad …