Alexander van Oudenaarden

62.1k total citations · 25 hit papers
200 papers, 36.6k citations indexed

About

Alexander van Oudenaarden is a scholar working on Molecular Biology, Genetics and Oncology. According to data from OpenAlex, Alexander van Oudenaarden has authored 200 papers receiving a total of 36.6k indexed citations (citations by other indexed papers that have themselves been cited), including 150 papers in Molecular Biology, 33 papers in Genetics and 24 papers in Oncology. Recurrent topics in Alexander van Oudenaarden's work include Gene Regulatory Network Analysis (42 papers), Single-cell and spatial transcriptomics (39 papers) and Epigenetics and DNA Methylation (21 papers). Alexander van Oudenaarden is often cited by papers focused on Gene Regulatory Network Analysis (42 papers), Single-cell and spatial transcriptomics (39 papers) and Epigenetics and DNA Methylation (21 papers). Alexander van Oudenaarden collaborates with scholars based in Netherlands, United States and Germany. Alexander van Oudenaarden's co-authors include Arjun Raj, Mukund Thattai, Dominic Grün, Hans Clevers, Lennart Kester, Scott A. Rifkin, Ertuğrul M. Özbudak, Jerome T. Mettetal, Murat Açar and Juan Manuel Pedraza and has published in prestigious journals such as Nature, Science and Cell.

In The Last Decade

Alexander van Oudenaarden

193 papers receiving 36.2k citations

Hit Papers

Many human large intergen... 2001 2026 2009 2017 2009 2008 2008 2002 2001 500 1000 1.5k 2.0k
What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

  1. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
    2009 2.3k citations Ahmad M. Khalil, Mitchell Guttman et al. Proceedings of the National Academy of Sciences profile →
  2. Nature, Nurture, or Chance: Stochastic Gene Expression and Its Consequences
    2008 1.8k citations Arjun Raj, Alexander van Oudenaarden profile →
  3. Imaging individual mRNA molecules using multiple singly labeled probes
    2008 1.5k citations Arjun Raj, Alexander van Oudenaarden et al. profile →
  4. Regulation of noise in the expression of a single gene
    2002 1.2k citations Alexander van Oudenaarden et al. profile →
  5. Intrinsic noise in gene regulatory networks
    2001 1.1k citations Alexander van Oudenaarden et al. Proceedings of the National Academy of Sciences profile →
  6. Single-cell messenger RNA sequencing reveals rare intestinal cell types
    2015 847 citations Dominic Grün, Anna Lyubimova et al. Nature profile →
  7. A Single-Cell Transcriptome Atlas of the Human Pancreas
    2016 787 citations Mauro J. Muraro, Gitanjali Dharmadhikari et al. Cell Systems profile →
  8. Multistability in the lactose utilization network of Escherichia coli
    2004 761 citations Alexander van Oudenaarden et al. Nature profile →
  9. Slug and Sox9 Cooperatively Determine the Mammary Stem Cell State
    2012 755 citations Shalev Itzkovitz, Alexander van Oudenaarden et al. profile →
  10. Direct cell reprogramming is a stochastic process amenable to acceleration
    2009 749 citations Bernardo Pando, Alexander van Oudenaarden et al. Nature profile →
  11. Cellular Decision Making and Biological Noise: From Microbes to Mammals
    2011 723 citations Alexander van Oudenaarden et al. profile →
  12. Stochastic switching as a survival strategy in fluctuating environments
    2008 647 citations Jerome T. Mettetal, Alexander van Oudenaarden et al. profile →
  13. Single-Cell Expression Analyses during Cellular Reprogramming Reveal an Early Stochastic and a Late Hierarchic Phase
    2012 626 citations Sandy Klemm, Alexander van Oudenaarden et al. profile →
  14. Noise Propagation in Gene Networks
    2005 615 citations Alexander van Oudenaarden et al. Science profile →
  15. Dll1+ secretory progenitor cells revert to stem cells upon crypt damage
    2012 584 citations Johan H. van Es, Marc van de Wetering et al. profile →
  16. MicroRNA-Mediated Feedback and Feedforward Loops Are Recurrent Network Motifs in Mammals
    2007 568 citations Alexander van Oudenaarden et al. profile →
  17. The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent ‘+4’ cell markers
    2012 562 citations Daniel E. Stange, Marc van de Wetering et al. The EMBO Journal profile →
  18. Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq
    2016 543 citations Alexander van Oudenaarden et al. profile →
  19. Using Gene Expression Noise to Understand Gene Regulation
    2012 539 citations Alexander van Oudenaarden et al. Science profile →
  20. Snowdrift game dynamics and facultative cheating in yeast
    2009 500 citations Alexander van Oudenaarden et al. Nature profile →
  21. Validation of noise models for single-cell transcriptomics
    2014 477 citations Dominic Grün, Alexander van Oudenaarden et al. profile →
  22. Replacement of Lost Lgr5-Positive Stem Cells through Plasticity of Their Enterocyte-Lineage Daughters
    2016 412 citations Onur Başak, Kay Wiebrands et al. Cell stem cell profile →
  23. De Novo Prediction of Stem Cell Identity using Single-Cell Transcriptome Data
    2016 370 citations Dominic Grün, Mauro J. Muraro et al. Cell stem cell profile →
  24. Blastocyst-like structures generated solely from stem cells
    2018 360 citations Alexander van Oudenaarden et al. Nature profile →
  25. An in vitro model of early anteroposterior organization during human development
    2020 302 citations Naomi Moris, Kerim Anlaş et al. Nature profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name h Career Trend Papers Cites
Alexander van Oudenaarden Netherlands 91 29.2k 6.5k 6.0k 4.0k 2.7k 200 36.6k
Jay Shendure United States 115 36.0k 1.2× 17.1k 2.6× 8.2k 1.4× 2.9k 0.7× 1.7k 0.6× 297 52.4k
Sarah A. Teichmann United Kingdom 87 23.6k 0.8× 2.7k 0.4× 3.8k 0.6× 3.8k 1.0× 1.4k 0.5× 264 32.5k
Roland Eils Germany 68 14.5k 0.5× 2.7k 0.4× 3.4k 0.6× 3.8k 1.0× 1.1k 0.4× 346 25.1k
Rahul Satija United States 45 28.8k 1.0× 2.5k 0.4× 7.0k 1.2× 4.9k 1.3× 1.8k 0.7× 71 41.3k
Joe W. Gray United States 99 26.8k 0.9× 12.1k 1.8× 10.8k 1.8× 11.5k 2.9× 2.7k 1.0× 487 46.4k
Jonathan S. Weissman United States 131 67.8k 2.3× 8.2k 1.3× 7.0k 1.2× 3.0k 0.8× 1.5k 0.5× 292 78.7k
John C. Marioni United Kingdom 73 18.2k 0.6× 3.0k 0.5× 4.6k 0.8× 1.7k 0.4× 880 0.3× 146 23.4k
Mark Gerstein United States 123 48.2k 1.6× 8.6k 1.3× 7.8k 1.3× 1.8k 0.5× 1.8k 0.7× 558 61.8k
Aviv Regev United States 129 61.9k 2.1× 6.4k 1.0× 20.4k 3.4× 7.3k 1.8× 4.0k 1.5× 319 80.8k
Garry P. Nolan United States 93 24.6k 0.8× 3.0k 0.5× 5.2k 0.9× 7.2k 1.8× 2.8k 1.0× 398 42.1k

Countries citing papers authored by Alexander van Oudenaarden

Since Specialization
Citations

This map shows the geographic impact of Alexander van Oudenaarden's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Alexander van Oudenaarden with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Alexander van Oudenaarden more than expected).

Fields of papers citing papers by Alexander van Oudenaarden

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Alexander van Oudenaarden. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Alexander van Oudenaarden. The network helps show where Alexander van Oudenaarden may publish in the future.

Co-authorship network of co-authors of Alexander van Oudenaarden

This figure shows the co-authorship network connecting the top 25 collaborators of Alexander van Oudenaarden. A scholar is included among the top collaborators of Alexander van Oudenaarden based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Alexander van Oudenaarden. Alexander van Oudenaarden is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

20 of 20 papers shown
1.
Sato, Koichi, Jing Lyu, Jeroen van den Berg, et al.. (2025). RNA transcripts regulate G-quadruplex landscapes through G-loop formation. Science. 388(6752). 1225–1231. 2 indexed citations
2.
Bondarenko, Vladyslav, Mikhail Nikolaev, Roman Belousov, et al.. (2023). Embryo‐uterine interaction coordinates mouse embryogenesis during implantation. The EMBO Journal. 42(17). e113280–e113280. 20 indexed citations
3.
Leeuwen, Wessel van, Michael VanInsberghe, Nico Battich, et al.. (2022). Identification of the stress granule transcriptome via RNA-editing in single cells and in vivo. Cell Reports Methods. 2(6). 100235–100235. 16 indexed citations
4.
Beumer, Joep, Jens Puschhof, Fjodor Yousef Yengej, et al.. (2022). BMP gradient along the intestinal villus axis controls zonated enterocyte and goblet cell states. Cell Reports. 38(9). 110438–110438. 70 indexed citations
5.
Moris, Naomi, Kerim Anlaş, Susanne van den Brink, et al.. (2020). An in vitro model of early anteroposterior organization during human development. Nature. 582(7812). 410–415. 302 indexed citations breakdown →
6.
Etemad, Banafsheh, et al.. (2019). Spindle checkpoint silencing at kinetochores with submaximal microtubule occupancy. Journal of Cell Science. 132(12). 21 indexed citations
7.
Başak, Onur, Teresa G. Krieger, Mauro J. Muraro, et al.. (2018). Troy+ brain stem cells cycle through quiescence and regulate their number by sensing niche occupancy. Proceedings of the National Academy of Sciences. 115(4). E610–E619. 121 indexed citations
8.
Fulton, Timothy, Maria Florescu, Gopi Shah, et al.. (2018). Neuromesodermal progenitors are a conserved source of spinal cord with divergent growth dynamics. Development. 145(21). 51 indexed citations
9.
Scheele, Colinda L. G. J., Édouard Hannezo, Mauro J. Muraro, et al.. (2017). Identity and dynamics of mammary stem cells during branching morphogenesis. Nature. 542(7641). 313–317. 146 indexed citations
10.
Muraro, Mauro J., Gitanjali Dharmadhikari, Dominic Grün, et al.. (2016). A Single-Cell Transcriptome Atlas of the Human Pancreas. Cell Systems. 3(4). 385–394.e3. 787 indexed citations breakdown →
11.
Sasaki, Nobuo, Norman Sachs, Kay Wiebrands, et al.. (2016). Reg4 + deep crypt secretory cells function as epithelial niche for Lgr5 + stem cells in colon. Proceedings of the National Academy of Sciences. 113(37). E5399–407. 206 indexed citations
12.
Schuijers, Jurian, Jan Philipp Junker, Michal Mokrý, et al.. (2015). Ascl2 Acts as an R-spondin/Wnt-Responsive Switch to Control Stemness in Intestinal Crypts. Cell stem cell. 16(2). 158–170. 193 indexed citations
13.
Schmiedel, Jörn M., Sandy Klemm, Yannan Zheng, et al.. (2015). MicroRNA control of protein expression noise. Science. 348(6230). 128–132. 281 indexed citations
14.
Almendro, Vanessa, Hee Jung Kim, Yu-Kang Cheng, et al.. (2014). Genetic and Phenotypic Diversity in Breast Tumor Metastases. Cancer Research. 74(5). 1338–1348. 129 indexed citations
15.
Teytelman, Lenny, Deborah Thurtle-Schmidt, Jasper Rine, & Alexander van Oudenaarden. (2013). Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins. Proceedings of the National Academy of Sciences. 110(46). 18602–18607. 290 indexed citations
16.
Lyubimova, Anna, Shalev Itzkovitz, Jan Philipp Junker, et al.. (2013). Single-molecule mRNA detection and counting in mammalian tissue. Nature Protocols. 8(9). 1743–1758. 143 indexed citations
17.
Topalidou, Irini, Alexander van Oudenaarden, & Martin Chalfie. (2011). Caenorhabditis elegans aristaless/Arx gene alr-1 restricts variable gene expression. Proceedings of the National Academy of Sciences. 108(10). 4063–4068. 38 indexed citations
18.
Khalil, Ahmad M., Mitchell Guttman, Maite Huarte, et al.. (2009). Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proceedings of the National Academy of Sciences. 106(28). 11667–11672. 2331 indexed citations breakdown →
19.
Pando, Bernardo, Guogang Dong, Susan S. Golden, Alexander van Oudenaarden, & Qiong Yang. (2009). Circadian Gating of the Cell Cycle Revealed in Single Cyanobacterial Cells. DSpace@MIT (Massachusetts Institute of Technology). 129 indexed citations
20.
Samadani, Azadeh, Jerome T. Mettetal, & Alexander van Oudenaarden. (2006). Cellular asymmetry and individuality in directional sensing. Proceedings of the National Academy of Sciences. 103(31). 11549–11554. 63 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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