Computational prediction of drug–target interactions using chemogenomic approaches: an empirical survey

A Ezzat, M Wu, XL Li, CK Kwoh - Briefings in bioinformatics, 2019 - academic.oup.com
Computational prediction of drug–target interactions (DTIs) has become an essential task in
the drug discovery process. It narrows down the search space for interactions by suggesting …

Network medicine in the age of biomedical big data

AR Sonawane, ST Weiss, K Glass, A Sharma - Frontiers in Genetics, 2019 - frontiersin.org
Network medicine is an emerging area of research dealing with molecular and genetic
interactions, network biomarkers of disease, and therapeutic target discovery. Large-scale …

OmniPath: guidelines and gateway for literature-curated signaling pathway resources

D Türei, T Korcsmáros, J Saez-Rodriguez - Nature methods, 2016 - nature.com
Resources that capture information about signaling pathways from the literature are
essential for the experimental design and analysis of many biological studies. Multiple …

Analysing biological pathways in genome-wide association studies

K Wang, M Li, H Hakonarson - Nature Reviews Genetics, 2010 - nature.com
Genome-wide association (GWA) studies have typically focused on the analysis of single
markers, which often lacks the power to uncover the relatively small effect sizes conferred by …

Hypergraph geometry reflects higher-order dynamics in protein interaction networks

KA Murgas, E Saucan, R Sandhu - Scientific Reports, 2022 - nature.com
Protein interactions form a complex dynamic molecular system that shapes cell phenotype
and function; in this regard, network analysis is a powerful tool for studying the dynamics of …

[PDF][PDF] Use of bioinformatics tools in different spheres of life sciences

MA Mehmood, U Sehar, N Ahmad - … of Data Mining in Genomics & …, 2014 - researchgate.net
The pace, by which scientific knowledge is being produced and shared today, was never
been so fast in the past. Different areas of science are getting closer to each other to give …

Integrated single-cell transcriptomics and proteomics reveal cellular-specific responses and microenvironment remodeling in aristolochic acid nephropathy

J Chen, P Luo, C Wang, C Yang, Y Bai, X He… - JCI …, 2022 - pmc.ncbi.nlm.nih.gov
Aristolochic acid nephropathy (AAN) is characterized by acute proximal tubule necrosis and
immune cell infiltration, contributing to the global burden of chronic kidney disease and …

Interpretation of network-based integration from multi-omics longitudinal data

A Bodein, MP Scott-Boyer, O Perin… - Nucleic acids …, 2022 - academic.oup.com
Multi-omics integration is key to fully understand complex biological processes in an holistic
manner. Furthermore, multi-omics combined with new longitudinal experimental design can …

Virus-host interactomics: new insights and opportunities for antiviral drug discovery

B De Chassey, L Meyniel-Schicklin, J Vonderscher… - Genome medicine, 2014 - Springer
The current therapeutic arsenal against viral infections remains limited, with often poor
efficacy and incomplete coverage, and appears inadequate to face the emergence of drug …

Human body-fluid proteome: quantitative profiling and computational prediction

L Huang, D Shao, Y Wang, X Cui, Y Li… - Briefings in …, 2021 - academic.oup.com
Empowered by the advancement of high-throughput bio technologies, recent research on
body-fluid proteomes has led to the discoveries of numerous novel disease biomarkers and …