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prof. dr. ir. A. (Alexander) van Oudenaarden

prof. dr. ir. A. (Alexander) van Oudenaarden

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Research Output (120)

Epiblast inducers capture mouse trophectoderm stem cells in vitro and pattern blastoids for implantation in utero

Seong Jinwoo, Frias-Aldeguer Javier, Holzmann Viktoria, Kagawa Harunobu, Sestini Giovanni, Heidari Khoei Heidar, Scholte Op Reimer Yvonne, Kip Maarten, Pradhan Saurabh J., Verwegen Lucas, Vivié Judith, Li Linfeng, Alemany Anna, Korving Jeroen, Darmis Frank, van Oudenaarden Alexander, ten Berge Derk, Geijsen Niels, Rivron Nicolas C. 7 Jul 2022, In: Cell stem cell. 29 , p. 1102-1118.e8

Identification of the stress granule transcriptome via RNA-editing in single cells and in vivo

van Leeuwen Wessel, VanInsberghe Michael, Battich Nico, Salmén Fredrik, van Oudenaarden Alexander, Rabouille Catherine 20 Jun 2022, In: Cell reports methods. 2

BMP gradient along the intestinal villus axis controls zonated enterocyte and goblet cell states

Beumer Joep, Puschhof Jens, Yengej Fjodor Yousef, Zhao Lianzheng, Martinez-Silgado Adriana, Blotenburg Marloes, Begthel Harry, Boot Charelle, van Oudenaarden Alexander, Chen Ye Guang, Clevers Hans 1 Mar 2022, In: Cell Reports. 38

Differential Survival and Therapy Benefit of Patients with Breast Cancer Are Characterized by Distinct Epithelial and Immune Cell Microenvironments

Kester Lennart, Seinstra Danielle, van Rossum Annelot G.J., Vennin Claire, Hoogstraat Marlous, van der Velden Daphne, Opdam Mark, van Werkhoven Erik, Hahn Kerstin, Nederlof Iris, Lips Ester H., Mandjes Ingrid A.M., van Leeuwen-Stok A. Elise, Canisius Sander, van Tinteren Harm, Imholz Alex L.T., Portielje Johanneke E.A., Bos Monique E.M.M., Bakker Sandra D., Rutgers Emiel J., Horlings Hugo M., Wesseling Jelle, Voest Emile E., Wessels Lodewyk F.A., Kok Marleen, Oosterkamp Hendrika M., van Oudenaarden Alexander, Linn Sabine C., van Rheenen Jacco 1 Mar 2022, In: Clinical Cancer Research. 28 , p. 960-971 12 p.

High-throughput total RNA sequencing in single cells using VASA-seq

Salmen Fredrik, De Jonghe Joachim, Kaminski Tomasz S., Alemany Anna, Parada Guillermo E., Verity-Legg Joe, Yanagida Ayaka, Kohler Timo N., Battich Nicholas, van den Brekel Floris, Ellermann Anna L., Arias Alfonso Martinez, Nichols Jennifer, Hemberg Martin, Hollfelder Florian, van Oudenaarden Alexander 2022, In: Nature Biotechnology. 40 , p. 1780-1793 14 p.

Strand-specific single-cell methylomics reveals distinct modes of DNA demethylation dynamics during early mammalian development

Sen Maya, Mooijman Dylan, Chialastri Alex, Boisset Jean Charles, Popovic Mina, Heindryckx Björn, Chuva de Sousa Lopes Susana M., Dey Siddharth S., van Oudenaarden Alexander Dec 2021, In: Nature Communications. 12

Single-cell transcriptomics links loss of human pancreatic β-cell identity to er stress

Groen Nathalie, Leenders Floris, Mahfouz Ahmed, Munoz-Garcia Amadeo, Muraro Mauro J., de Graaf Natascha, Rabelink Ton J., Hoeben Rob, van Oudenaarden Alexander, Zaldumbide Arnaud, Reinders Marcel J.T., de Koning Eelco J.P., Carlotti Françoise Dec 2021, In: Cells. 10

Molecular characterization of Barrett's esophagus at single-cell resolution

Busslinger Georg A, de Barbanson Buys, Oka Rurika, Weusten Bas L A, de Maat Michiel, van Hillegersberg Richard, Brosens Lodewijk A A, van Boxtel Ruben, van Oudenaarden Alexander, Clevers Hans 23 Nov 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118 , p. 1-12

H3K9me selectively blocks transcription factor activity and ensures differentiated tissue integrity

Methot Stephen P., Padeken Jan, Brancati Giovanna, Zeller Peter, Delaney Colin E., Gaidatzis Dimos, Kohler Hubertus, van Oudenaarden Alexander, Großhans Helge, Gasser Susan M. Nov 2021, In: Nature Cell Biology. 23 , p. 1163-1175 13 p.

Single-cell Ribo-seq reveals cell cycle-dependent translational pausing

VanInsberghe Michael, van den Berg Jeroen, Andersson-Rolf Amanda, Clevers Hans, van Oudenaarden Alexander 23 Sep 2021, In: Nature. 597 , p. 561-565 5 p.

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