Integrating transcriptomics and metabonomics to unravel modes-of-action of 2, 3, 7, 8-tetrachlorodibenzo-p-dioxin (TCDD) in HepG2 cells. - Danyel Jennen; Ainhoa Ruiz-Aracama; Christina Magkoufopoulou; Ad Peijnenburg; Arjen Lommen; Joost van Delft; Jos Kleinjans (BMC Syst. Biol., 2011)

diXa: a data infrastructure for chemical safety assessment. - Diana M. Hendrickx; Hugo J. W. L. Aerts; Florian Caiment; Dominic Clark; Timothy M. D. Ebbels; Chris T. A. Evelo; Hans Gmuender; Dennie G. A. J. Hebels; Ralf Herwig; Jürgen Hescheler; Danyel G. J. Jennen; Marlon J. A. Jetten; et al. (Bioinform., 2015)

Pattern recognition methods to relate time profiles of gene expression with phenotypic data: a comparative study. - Diana M. Hendrickx; Danyel G. J. Jennen; Jacob J. Briedé; Rachel Cavill; Theo M. de Kok; Jos C. S. Kleinjans (Bioinform., 2015)

MagiCMicroRna: a web implementation of AgiMicroRna using shiny. - Maarten Coonen; Daniel Theunissen; Jos Kleinjans; Danyel Jennen (Source Code Biol. Medicine, 2015)

Transcriptomic and metabolomic data integration. - Rachel Cavill; Danyel Jennen; Jos Kleinjans; Jacob J. Briedé (Briefings Bioinform., 2016)

DynOVis: a web tool to study dynamic perturbations for capturing dose-over-time effects in biological networks. - T. J. M. Kuijpers; J. E. J. Wolters; Jos C. S. Kleinjans; Danyel G. J. Jennen (BMC Bioinform., 2019)

ToxicoDB: an integrated database to mine and visualize large-scale toxicogenomic datasets. - Sisira Kadambat Nair; Christopher Eeles; Chantal Ho; Gangesh Beri; Esther Yoo; Denis Tkachuk; Amy Tang; Parwaiz Nijrabi; Petr Smirnov; Heewon Seo; Danyel Jennen; Benjamin Haibe-Kains (Nucleic Acids Res., 2020)

A bioinformatics workflow to detect genes with DNA methylation alterations: a case study of analyzing MeDIP-seq data in cardiac microtissue exposed to epirubicin. - Nhan Nguyen; Matthias Lienhard; Ralf Herwig; Jos Kleinjans; Danyel Jennen (ICBBB, 2022)