A decade of toxicogenomic research and its contribution to toxicological science

M Chen, M Zhang, J Borlak, W Tong - Toxicological Sciences, 2012 - academic.oup.com
Toxicogenomics enjoyed considerable attention as a ground-breaking addition to
conventional toxicology assays at its inception. However, the pace at which toxicogenomics …

Invited review: Toxicoproteomics: Proteomics applied to toxicology and pathology

BA Wetmore, BA Merrick - Toxicologic pathology, 2004 - journals.sagepub.com
Global measurement of proteins and their many attributes in tissues and biofluids defines
the field of proteomics. Toxicoproteomics, as part of the larger field of toxicogenomics, seeks …

The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements.

L Shi, LH Reid, WD Jones, R Shippy… - Nature …, 2006 - europepmc.org
Over the last decade, the introduction of microarray technology has had a profound impact
on gene expression research. The publication of studies with dissimilar or altogether …

The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements

Nature biotechnology, 2006 - nature.com
Over the last decade, the introduction of microarray technology has had a profound impact
on gene expression research. The publication of studies with dissimilar or altogether …

Comparative Toxicogenomics Database: a knowledgebase and discovery tool for chemical–gene–disease networks

AP Davis, CG Murphy… - Nucleic acids …, 2009 - academic.oup.com
Abstract The Comparative Toxicogenomics Database (CTD) is a curated database that
promotes understanding about the effects of environmental chemicals on human health …

Rat toxicogenomic study reveals analytical consistency across microarray platforms

L Guo, EK Lobenhofer, C Wang, R Shippy… - Nature …, 2006 - nature.com
To validate and extend the findings of the MicroArray Quality Control (MAQC) project, a
biologically relevant toxicogenomics data set was generated using 36 RNA samples from …

Examination of Triacylglycerol Biosynthetic Pathways via De Novo Transcriptomic and Proteomic Analyses in an Unsequenced Microalga

MT Guarnieri, A Nag, SL Smolinski, A Darzins… - PloS one, 2011 - journals.plos.org
Biofuels derived from algal lipids represent an opportunity to dramatically impact the global
energy demand for transportation fuels. Systems biology analyses of oleaginous algae …

Comparison of HepG2 and HepaRG by whole-genome gene expression analysis for the purpose of chemical hazard identification

DGJ Jennen, C Magkoufopoulou… - Toxicological …, 2010 - academic.oup.com
Direct comparison of the hepatoma cell lines HepG2 and HepaRG has previously been
performed by only evaluating a limited set of genes or proteins. In this study, we examined …

Trade-off predictivity and explainability for machine-learning powered predictive toxicology: An in-depth investigation with Tox21 data sets

L Wu, R Huang, IV Tetko, Z Xia, J Xu… - Chemical research in …, 2021 - ACS Publications
Selecting a model in predictive toxicology often involves a trade-off between prediction
performance and explainability: should we sacrifice the model performance to gain …

Techniques: application of systems biology to absorption, distribution, metabolism, excretion and toxicity

S Ekins, Y Nikolsky, T Nikolskaya - Trends in pharmacological sciences, 2005 - cell.com
It is widely recognized that either predicting or determining the absorption, distribution,
metabolism, excretion and toxicity (ADME/Tox) properties of molecules helps to prevent the …