Making sense of chemical space network shows signs of criticality

N Amoroso, N Gambacorta, F Mastrolorito, MV Togo… - Scientific Reports, 2023 - nature.com
Chemical space modelling has great importance in unveiling and visualising latent
information, which is critical in predictive toxicology related to drug discovery process. While …

Quantitative toxicity prediction using topology based multitask deep neural networks

K Wu, GW Wei - Journal of chemical information and modeling, 2018 - ACS Publications
The understanding of toxicity is of paramount importance to human health and
environmental protection. Quantitative toxicity analysis has become a new standard in the …

Equivariant graph neural networks for toxicity prediction

J Cremer, L Medrano Sandonas… - Chemical Research …, 2023 - ACS Publications
Predictive modeling of toxicity is a crucial step in the drug discovery pipeline. It can help filter
out molecules with a high probability of failing in the early stages of de novo drug design …

Towards decoding hepatotoxicity of approved drugs through navigation of multiverse and consensus chemical spaces

E López-López, JL Medina-Franco - Biomolecules, 2023 - mdpi.com
Drug-induced liver injury (DILI) is the principal reason for failure in developing drug
candidates. It is the most common reason to withdraw from the market after a drug has been …

MouseTox: An online toxicity assessment tool for small molecules through Enalos Cloud platform

DD Varsou, G Melagraki, H Sarimveis… - Food and Chemical …, 2017 - Elsevier
Advances in the drug discovery research substantially depend on in silico methods and
techniques that capitalize on experimental data to enable the accurate property/activity …

Navigating transcriptomic connectivity mapping workflows to link chemicals with bioactivities

I Shah, J Bundy, B Chambers, LJ Everett… - Chemical research in …, 2022 - ACS Publications
Screening new compounds for potential bioactivities against cellular targets is vital for drug
discovery and chemical safety. Transcriptomics offers an efficient approach for assessing …

The impact of network biology in pharmacology and toxicology

G Panagiotou, O Taboureau - SAR and QSAR in Environmental …, 2012 - Taylor & Francis
With the need to investigate alternative approaches and emerging technologies in order to
increase drug efficacy and reduce adverse drug effects, network biology offers a novel way …

Use of connectivity mapping to support read across: A deeper dive using data from 186 chemicals, 19 cell lines and 2 case studies

KN De Abrew, YK Shan, X Wang, JM Krailler… - Toxicology, 2019 - Elsevier
We previously demonstrated that the Connectivity Map (CMap)(Lamb et al., 2006) concept
can be successfully applied to a predictive toxicology paradigm to generate meaningful MoA …

embryoTox: using graph-based signatures to predict the teratogenicity of small molecules

R Aljarf, S Tang, DEV Pires… - Journal of Chemical …, 2023 - ACS Publications
Teratogenic drugs can lead to extreme fetal malformation and consequently critically
influence the fetus's health, yet the teratogenic risks associated with most approved drugs …

Visualizing chemical space networks with RDKit and NetworkX

VF Scalfani, VD Patel, AM Fernandez - Journal of Cheminformatics, 2022 - Springer
This article demonstrates how to create Chemical Space Networks (CSNs) using a Python
RDKit and NetworkX workflow. CSNs are a type of network visualization that depict …