Author

Bram Pronk

Delft University of TechnologyORCID 0009-0001-8017-1066Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:dimensionality reduction· 1 Organism:human· 1 Approach:machine learning (classical)· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Marcel J. T. ReindersiD· 2 shared Stavros MakrodimitrisiD· 2 shared Saskia M. WiltingiD· 1 shared Tamim AbdelaaliD· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

4 top collaborators · 5 mutual co-author links

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2 shared papersBioinformatics

Marcel J. T. ReindersORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintJun 26, 2026

Cell-free DNA Fragmentation Profiling at Transcription Start Sites Improves upon Cancer-Type-Specific Region Selection for Cancer Detection

Bram Pronk, Stavros Makrodimitris, Saskia M. Wilting, Marcel J. T. Reinders

The paper develops a data-driven framework to detect cancer using cfDNA fragmentation patterns at TSSs, outperforming existing methods in distinguishing cancer from healthy samples.

DOI 10.64898/2026.06.22.733692

humanwhole-genome sequencing

𝕏 PostBluesky

BioinformaticsBriefings in BioinformaticsPeer-reviewedOct 31, 2023

An in-depth comparison of linear and non-linear joint embedding methods for bulk and single-cell multi-omics

Stavros Makrodimitris, Bram Pronk, Tamim Abdelaal, Marcel J. T. Reinders

This study compares linear and non-linear joint embedding methods for bulk and single-cell multi-omics, finding non-linear methods excel in imputation and joint embeddings improve performance in supervised tasks.

12 citations

bulk RNA-seqscRNA-seq

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