Author

J. Beumer

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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Cell Biology· 4 Cancer Biology· 3

Signature Assays, Organisms & Methods

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Organism:human· 7 Approach:experimental assay· 6 Research Focus:cell type annotation· 4 Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Research Focus:cancer & tumor microenvironment· 2 Research Focus:host-pathogen & immune response· 2 Assay:organoid / primary culture· 2

Frequent Co-Authors

H. Clevers· 4 shared J. Puschhof· 2 shared A. Angione· 1 shared A. C. Tarbay· 1 shared A. Cillo· 1 shared A. Duensing· 1 shared A. F. M. Dost· 1 shared A. Li· 1 shared

Activity by Year

2020-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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4 shared papersCell Biology

H. Clevers

Mutual co-authors in cluster

Author profile →

7 papers

Recent·Most cited

All-trans retinoic acid induces durable tumor immunity in IDH-mutant gliomas by rescuing transcriptional repression of the CRBP1-retinoic acid axis

A. Rao, X. Zhang, A. Cillo, J. H. Sussman, P. Sandlesh, A. C. Tarbay, A. N. Mallela, C. Cardello, K. Krueger, J. Xu, A. Li, J. Xu, J. Patterson, E. Akca, A. Angione, , N. M. Amankulor

This study shows that all-trans retinoic acid (ATRA) improves immune response in IDH-mutant gliomas by restoring the RA pathway, leading to tumor regression in mouse models and a clinical trial for human patients.

bioRxiv · Apr 9, 2024 · PreprintCancer Biology

Differential response to LSD1 inhibition in prostate cancer reveals a YAP1 vulnerability in the neuroendocrine subtype

S. Jasim, R. Kumar, S. Kim, T. Krueger, I. Coleman, S. Dalrymple, L. Antony, D. Rosen, B. Hanratty, R. Patel, P. Nelson, Z. Aghaei, J. Beumer, M. Haffner, T. Lotan, , W. Brennen

This paper shows that LSD1 inhibition is effective against neuroendocrine prostate cancer (NEPC) and that combining it with YAP/TEAD inhibition enhances treatment efficacy.

bioRxiv · Jan 17, 2024 · PreprintCancer Biology

An integrated transcriptomic cell atlas of human endoderm-derived organoids

Q. Xu, L. Halle, S. Hediyeh-zadeh, M. Kuijs, U. Kilik, Q. Yu, T. Frum, L. Adam, S. Parikh, M. Gander, R. Kfuri-Rubens, D. Klein, Z. He, J. S. Fleck, K. Oost, , J. G. Camp

This paper creates a human endoderm organoid cell atlas by integrating single-cell transcriptomes from multiple organoid types to compare cell states with primary tissues and disease models.

bioRxiv · Nov 20, 2023Cell Biology

Druggable Growth Dependencies and Tumor Evolution Analysis in Patient-Derived Organoids of Neuroendocrine Cancer

T. L. Dayton, N. Alcala, L. Moonen, L. den Hartigh, L. Mangiante, L. Lap, A. F. M. Dost, J. Beumer, S. Levy, R. S. van Leeuwaarde, W. M. Hackeng, K. Samsom, C. Voegele, A. Sexton-Oates, H. Begthel, , H. Clevers

This study establishes patient-derived tumor organoids (PDTOs) for neuroendocrine cancers, identifies therapeutic vulnerabilities, and highlights EGF dependency in pulmonary neuroendocrine tumors.

bioRxiv · Oct 31, 2022Cancer Biology

A turquoise fluorescence lifetime-based biosensor for quantitative imaging of intracellular calcium

F. H. van der Linden, E. K. Mahlandt, J. J. G. Arts, J. Beumer, J. Puschhof, S. M. A. de Man, A. O. Chertkova, B. Ponsioen, H. Clevers, J. D. van Buul, M. Postma, T. W. J. Gadella, J. Goedhart

This paper introduces a new calcium biosensor based on fluorescence lifetime imaging, which provides accurate and pH-insensitive quantification of intracellular calcium concentrations.

bioRxiv · Jun 21, 2021Cell Biology

SARS-CoV-2 Productively Infects Human Gut Enterocytes

M. M. Lamers, J. Beumer, J. van der Vaart, K. Knoops, J. Puschhof, T. I. Breugem, R. B. G. Ravelli, J. P. van Schayck, A. Z. Mykytyn, H. Q. Duimel, E. van Donselaar, S. Riesebosch, H. J. H. Kuijpers, D. Schipper, W. J. van de Wetering, , H. Clevers

The paper shows SARS-CoV-2 infects human gut enterocytes in small intestinal organoids, leading to viral replication and a strong immune response.

bioRxiv · Apr 25, 2020Cell Biology

Fast and efficient generation of knock-in human organoids using homology-independent CRISPR/Cas9 precision genome editing

B. Artegiani, D. Hendriks, J. Beumer, R. Kok, X. Zheng, I. Joore, S. Chuva de Sousa Lopes, J. van Zon, S. Tans, H. Clevers

This paper introduces CRISPR-HOT, a method for efficient knock-in of exogenous DNA in human organoids without requiring homology templates or TP53 inactivation, and demonstrates its application in studying hepatocyte division and ploidy.

bioRxiv · Jan 15, 2020Cell Biology