Author

B. van de Water

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Pharmacology & Toxicology· 4 Cancer Biology· 2

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 5 Organism:human· 5 Research Focus:differential expression· 4 Approach:statistical model· 4 Research Focus:cell type annotation· 3 Research Focus:gene regulatory network inference· 3 Approach:experimental assay· 2 Assay:proteomics· 2

Frequent Co-Authors

S. J. Kunnen· 3 shared G. Callegaro· 2 shared J. J. Sutherland· 2 shared J. L. Stevens· 2 shared J. Saez-Rodriguez· 2 shared M. Niemeijer· 2 shared P. Trairatphisan· 2 shared A. Baze· 1 shared

Activity by Year

2018-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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3 shared papersPharmacology & Toxicology

S. J. Kunnen

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

Utilizing gene co-expression networks with the rat kidney TXG-MAPr tool to enhance safety assessment, biomarker identification and human translation

S. J. Kunnen, G. Callegaro, J. J. Sutherland, P. Trairatphisan, H. van Kessel, L. S. Wijaya, G. Chung, K. Pye, K. M. Goldstein, C. R. Teague, C. P. Fisher, J. Saez-Rodriguez, C. Brown, S. A. Elmore, K. M. Heinz-Taheny, , B. van de Water

This study builds gene co-expression networks from rat kidney toxicogenomics data and integrates them into a web tool to improve safety assessment and biomarker identification for drug development.

bioRxiv · Nov 3, 2023 · PreprintPharmacology & Toxicology

ABCB1 overexpression through locus amplification represents an actionable target to combat paclitaxel resistance in pancreatic cancer cells

C. Bergonzini, A. Gregori, T. M. S. Hagens, V. E. van der Noord, B. van de Water, A. J. M. Zweemer, M. Capula, G. Mantini, A. Botto, F. Finamore, I. Garajova, L. A. McDonnell, T. Schmidt, E. Giovannetti, E. H. J. Danen

This study identifies ABCB1 overexpression via locus amplification as a conserved mechanism of paclitaxel resistance in PDAC and shows that targeting ABCB1 can sensitize resistant cells to treatment.

bioRxiv · May 30, 2023 · PreprintCancer Biology

Qualitative and Quantitative Concentration-Response Modelling of Gene Co-expression Networks to Unlock Hepatotoxic Mechanisms for Next Generation Chemical Safety Assessment

S. J. Kunnen, E. Arnesdotter, C. T. Willenbockel, M. Vinken, B. van de Water

This study uses concentration-response modelling of gene co-expression networks in human hepatocyte cultures to identify transcriptomics points of departure for hepatotoxicity, aiding in chemical safety assessment.

bioRxiv · Feb 1, 2023Pharmacology & Toxicology

The human hepatocyte TXG-MAPr: WGCNA transcriptomic modules to support mechanism-based risk assessment

G. Callegaro, S. J. Kunnen, P. Trairatphisan, S. Grosdidier, M. Niemeijer, W. den Hollander, E. Guney, J. P. Gonzalez, L. Furlong, Y. W. Webster, J. Saez-Rodriguez, J. J. Sutherland, J. Mollon, J. L. Stevens, B. van de Water

The paper introduces TXG-MAPr, a tool for analyzing toxicogenomic data using WGCNA to identify stress response modules across species and platforms.

Archives of Toxicology · Oct 9, 2021Peer-reviewedPharmacology & Toxicology

Transcriptomic mapping of the inter-individual variability of cellular stress response activation in primary human hepatocytes

M. Niemeijer, W. Wiecek, S. Huppelschoten, P. Bouwman, A. Baze, C. Parmentier, L. Richert, R. S. Paules, F. Y. Bois, B. van de Water

The paper maps inter-individual variability in stress response activation in primary human hepatocytes using transcriptome analysis and population modeling to improve DILI prediction.

bioRxiv · Aug 26, 2021 · PreprintPharmacology & Toxicology

Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes

E. Koedoot, M. Fokkelman, V.-M. Rogkoti, S. Le Devedec, I. van de Sandt, H. de Bont, C. Pont, J. E. Klip, E. A. C. Wiemer, M. Smid, P. Stoilov, J. A. Foekens, J. W. M. Martens, B. van de Water

The paper identifies novel metastasis driver genes by screening cell migration in breast cancer cell lines and validates their role in metastasis formation.

bioRxiv · Dec 5, 2018Cancer Biology