Case study: the role of mechanistic network models in systems toxicology

J Hoeng, M Talikka, F Martin, A Sewer, X Yang… - Drug Discovery …, 2014 - Elsevier
Highlights•Biological network models enable a mechanistic understanding of high-
throughput data.•Network response can be quantified for the impact of a given stimulus.•The …

[HTML][HTML] Quantitative assessment of biological impact using transcriptomic data and mechanistic network models

TM Thomson, A Sewer, F Martin, V Belcastro… - Toxicology and applied …, 2013 - Elsevier
Exposure to biologically active substances such as therapeutic drugs or environmental
toxicants can impact biological systems at various levels, affecting individual molecules …

Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models

F Martin, A Sewer, M Talikka, Y Xiang, J Hoeng… - BMC …, 2014 - Springer
Background High-throughput measurement technologies such as microarrays provide
complex datasets reflecting mechanisms perturbed in an experiment, typically a treatment …

Systems toxicology: real world applications and opportunities

T Hartung, RE FitzGerald, P Jennings… - Chemical research in …, 2017 - ACS Publications
Systems Toxicology aims to change the basis of how adverse biological effects of
xenobiotics are characterized from empirical end points to describing modes of action as …

Applicability of computational systems biology in toxicology

K Kongsbak, N Hadrup, K Audouze… - Basic & clinical …, 2014 - Wiley Online Library
Abstract Systems biology as a research field has emerged within the last few decades.
Systems biology, often defined as the antithesis of the reductionist approach, integrates …

[HTML][HTML] Network and pathway analysis of toxicogenomics data

G Barel, R Herwig - Frontiers in Genetics, 2018 - frontiersin.org
Toxicogenomics is the study of the molecular effects of chemical, biological and physical
agents in biological systems, with the aim of elucidating toxicological mechanisms, building …

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 …

Systems toxicology: from basic research to risk assessment

SJ Sturla, AR Boobis, RE FitzGerald… - Chemical research in …, 2014 - ACS Publications
Systems Toxicology is the integration of classical toxicology with quantitative analysis of
large networks of molecular and functional changes occurring across multiple levels of …

Cause-effect relationships in medicine: a protein network perspective

AF Fliri, WT Loging, RA Volkmann - Trends in pharmacological sciences, 2010 - cell.com
Current target-based drug discovery platforms are not able to predict drug efficacy and the
full spectrum of drug effects in organisms. Hence, many experimental drugs do not survive …

Computational systems biology and dose-response modeling in relation to new directions in toxicity testing

Q Zhang, S Bhattacharya, ME Andersen… - Journal of Toxicology …, 2010 - Taylor & Francis
The new paradigm envisioned for toxicity testing in the 21st century advocates shifting from
the current animal-based testing process to a combination of in vitro cell-based studies, high …