Author

Lukas S. Wijaya

Leiden UniversityORCID 0000-0003-0646-9267Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Pharmacology & Toxicology· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:bulk RNA-seq· 2 Organism:human· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Organism:rat· 1

Frequent Co-Authors

Bob van de WateriD· 3 shared Giulia CallegaroiD· 2 shared Steven J. KunneniD· 2 shared Birgit MertensiD· 1 shared Carsten WeißiD· 1 shared Ciarán Fisher· 1 shared Claire R. Teague· 1 shared Colin BrowniD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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3 shared papersBioinformatics

Bob van de WaterORCID

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3 papers

Recent·Most cited

BioinformaticsToxicological SciencesPeer-reviewedSep 1, 2026

Analytical Choices Drive Toxicogenomic Potency Estimates: A Systematic Evaluation of Transcriptomic Points of Departure

Imke B. Bruns, Dayna R. Schultz, Emmanuel Demuynck…·Giulia Callegaro

The paper evaluates how different transcriptomic analysis workflows affect potency estimates in toxicogenomics, finding significant variability driven by normalization, filtering, and pathway definitions.

DOI 10.1093/toxsci/kfag115

humanbulk RNA-seq

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Systems BiologybioRxivPreprintAug 14, 2025

Data-driven dynamic modelling identifies polyploidisation as key process in cell cycle progression upon DNA damage

Elsje J Burgers, Muriel M. Heldring, Lukas S. Wijaya…·Joost B. Beltman

The paper develops a mathematical model to study how DNA damage affects cell cycle progression, finding that polyploidisation is a key response in HepG2 cells.

DOI 10.1101/2025.08.14.670293

humanstatistical model

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Pharmacology & ToxicologyiSciencePeer-reviewedJun 21, 2025

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

Steven J. Kunnen, Giulia Callegaro, Jeffrey J. Sutherland…·Bob 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.

7 citations

ratbulk RNA-seq

𝕏 PostBluesky