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 …

Recovering dynamic networks in big static datasets

R Wu, L Jiang - Physics Reports, 2021 - Elsevier
The promise of big data is enormous and nowhere is it more critical than in its potential to
contain important, undiscovered interdependence among thousands of variables. Networks …

Assessment of network module identification across complex diseases

S Choobdar, ME Ahsen, J Crawford, M Tomasoni… - Nature …, 2019 - nature.com
Many bioinformatics methods have been proposed for reducing the complexity of large gene
or protein networks into relevant subnetworks or modules. Yet, how such methods compare …

Characterizing the fuzzy community structure in link graph via the likelihood optimization

HJ Li, S Song, W Tan, Z Huang, X Li, W Xu, J Cao - Neurocomputing, 2022 - Elsevier
Detecting fuzzy communities in networks is a critical but challenging task in many fields
including biology, technology, social system and so on. Current technology is largely reliant …

Modularity in biological networks

SA Alcalá-Corona, S Sandoval-Motta… - Frontiers in …, 2021 - frontiersin.org
Network modeling, from the ecological to the molecular scale has become an essential tool
for studying the structure, dynamics and complex behavior of living systems. Graph …

Community detection in complex networks using stacked autoencoders and crow search algorithm

S Kumar, A Mallik, SS Sengar - The Journal of Supercomputing, 2023 - Springer
The presence of community structures in complex networks reveals meaningful insights
about such networks and their constituent entities. Finding groups of related nodes based on …

ClonoCluster: a method for using clonal origin to inform transcriptome clustering

LP Richman, Y Goyal, CL Jiang, A Raj - Cell Genomics, 2023 - cell.com
Clustering cells based on their high-dimensional profiles is an important data reduction
process by which researchers infer distinct cellular states. The advent of cellular barcoding …

Inferring functional communities from partially observed biological networks exploiting geometric topology and side information

J Sia, W Zhang, E Jonckheere, D Cook, P Bogdan - Scientific Reports, 2022 - nature.com
Cellular biological networks represent the molecular interactions that shape function of living
cells. Uncovering the organization of a biological network requires efficient and accurate …

A novel strategy for decoding and validating the combination principles of huanglian jiedu decoction from multi-scale perspective

KX Wang, Y Gao, WX Gong, XF Ye, LY Fan… - Frontiers in …, 2020 - frontiersin.org
Traditional Chinese medicine (TCM) formulas treat complex diseases through combined
botanical drugs which follow specific compatibility rules to reduce toxicity and increase …

[HTML][HTML] A new feature selection method based on feature distinguishing ability and network influence

Y Qi, B Su, X Lin, H Zhou - Journal of Biomedical Informatics, 2022 - Elsevier
The occurrence and development of diseases are related to the dysfunction of biomolecules
(genes, metabolites, etc.) and the changes of molecule interactions. Identifying the key …