Search PubMed for articles by Alexander van Oudenaarden
PDF files are for personal use only

2013

Feedback control of gene expression variability in the Caenorhabditis elegans Wnt pathway
N. Ji, T. C. Middelkoop, R. A. Mentink, M. C. Betist, S. Tonegawa, D. Mooijman, H. C. Korswagen, A. van Oudenaarden
Cell 155, 869 (2013).
Download Reprint (PDF)

Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins
L. Teytelman, D. M. Thurtle, J. Rine J, and A. van Oudenaarden
PNAS Oct 30 [Epub ahead of print] (2013).
Download Reprint (PDF) | PubMed

Dampening of expression oscillations by synchronous regulation of a microRNA and its target
D. H. Kim, D. Grün, and A. van Oudenaarden
Nature Genetics 45, 1337 (2013).
Download Reprint (PDF) | PubMed

Single-molecule mRNA detection and counting in mammalian tissue
A. Lyubimova, S. Itzkovitz, J. P. Junker, Z. P. Fan, X. Wu, and A. van Oudenaarden
Nature Protocols 8, 1743 (2013).
Download Reprint (PDF) | PubMed

Allele-specific detection of single mRNA molecules in situ
C. H. Hansen and A. van Oudenaarden
Nature Methods 10, 869 (2013).
Download Reprint (PDF)| SupInfo | PubMed

Stochastic cytokine expression induces mixed T helper cell states
M. Fang, H. Xie, S. K. Dougan, H. Ploegh, and A. van Oudenaarden
PLoS Biology 11: e1001618. doi:10.1371/journal.pbio.1001618 (2013).
Download Reprint (PDF)
| PubMed

A physical sciences network characterization of non-tumorigenic and metastatic cells
Physical Sciences - Oncology Centers Network
Scientific Reports 3, 1449 (2013).
Download Reprint (PDF)| SupInfo
| PubMed

Systematic identification of signal-activated stochastic gene regulation
G. Neuert, B. Munsky, R. Z. Tan, L. Teytelman, M. Khammash, and A. van Oudenaarden
Science 339, 584 (2013).
Download Reprint (PDF)| SupInfo
| PubMed

Robustness and epistasis in the C. elegans vulval signaling network revealed by pathway dosage modulation
M. Barkoulas, J. S. van Zon, J. Milloz, A. van Oudenaarden, and M. A. Félix
Developmental Cell 24, 64 (2013).
Download Reprint (PDF)| SupInfo
| PubMed

Deconvolving the roles of Wnt ligands and receptors in sensing and amplification
R. Z. Tan, N. Ji, R. A. Mentink, H. C. Korswagen, and A. van Oudenaarden
Molecular Systems Biology 9:631 doi:10.1038/msb.2012.64 (2013).
Download Reprint (PDF)| SupInfo
| PubMed

A versatile genome-scale PCR-based pipeline for high-definition DNA FISH
M. Bienko, N. Crosetto, L. Teytelman, S. Klemm, S. Itzkovitz, and A. van Oudenaarden
Nature Methods 10, 122 (2013).
Download Reprint (PDF) | www.hdfish.eu | SupInfo | PubMed | Cover

2012

Neural-specific Sox2 input and differential Gli-binding affinity provide context and positional information in Shh-directed neural patterning
K. A. Peterson, Y. Nishi, W. Ma, A. Vedenko, L. Shokri, X. Zhang, M. McFarlane, J. M. Baizabal, J. P. Junker, A. van Oudenaarden, T. Mikkelsen, B. E. Bernstein, T. L. Bailey, M. L. Bulyk, W. H. Wong, and A. P. McMahon
Genes and Development 26, 2802 (2012).
Download Reprint (PDF) | PubMed

Single molecule fluorescent in situ hybridization (smFISH) of C. elegans worms and embryos
N. Ji, and A. van Oudenaarden
WormBook, ed. The C. elegans Research Community, WormBook, doi/10.1895/wormbook.1.153.1 (2012).
Download Reprint (PDF) | PubMed

Identifying the stem cell of the intestinal crypt: strategies and pitfalls
N. Barker, A. van Oudenaarden, and H. Clevers
Cell Stem Cell 11, 452 (2012).
Download Reprint (PDF) | PubMed

Dll1(+) secretory progenitor cells revert to stem cells upon crypt damage
J. H. van Es, T. Sato, M. van de Wetering, A. Lyubimova, A. N. Yee Nee, A. Gregorieff, N. Sasaki, L. Zeinstra, M. van den Born, J. Korving, A. C. Martens, N. Barker, A. van Oudenaarden, and H. Clevers
Nature Cell Biology 14, 1099 (2012).
Download Reprint (PDF) | PubMed

Single-cell expression analyses during cellular reprogramming reveal an early stochastic and a late hierarchic phase
Y. Buganim, D. A. Faddah, A. W. Cheng, E. Itskovich, S. Markoulaki, K. Ganz, S. L. Klemm, A. van Oudenaarden, and R. Jaenisch
Cell 150, 1209 (2012).
Download Reprint (PDF) | PubMed

Transcription of two long noncoding RNAs mediates mating-type control of gametogenesis in budding yeast
F. J. van Werven, G. Neuert, N. Hendrick, A. Lardenois, S. Buratowski, A. van Oudenaarden, M. Primig, and A. Amon
Cell 150, 1170 (2012).
Download Reprint (PDF) | PubMed

The Lgr5 intestinal stem cell signature: robust expression of proposed quiescent ‘+4’ cell markers
J. Munoz, D. E. Stange, A. G. Schepers, M. van de Wetering, B. Koo, S. Itzkovitz, R. Volckmann, K. S. Kung, J. Koster, S. Radulescu, K. Myant, R. Versteeg, O. J. Sansom, J. H. van Es, N. Barker, A. van Oudenaarden, S. Mohammed, A. Heck, and H. Clevers
EMBO Journal 31, 3079 (2012).
Download Reprint (PDF) | SupInfo
| PubMed

How to regulate a gene: To repress or to activate?
N. Slavov and A. van Oudenaarden
Molecular Cell 45, 551 (2012).
Download Reprint (PDF) | PubMed

UNC-4 antagonizes Wnt signaling to regulate synaptic choice in the C. elegans motor circuit
J. Schneider, R. L. Skelton, S. E. Von Stetina, T. C. Middelkoop, A. van Oudenaarden, H. C. Korswagen, and D. M. Miller 3rd.

Development 139, 2234 (2012).
Download Reprint (PDF) | PubMed

Identification of molecular compartments and genetic circuitry in the developing mammalian kidney
J. Yu, M. T. Valerius, M. Duah, K. Staser, J. K. Hansard, J. J.
Guo, J. McMahon, J. Vaughan, D. Faria, K. Georgas, B. Rumballe, Q. Ren, A. M. Krautzberger, J. P. Junker, R. D. Thiagarajan, P. Machanick, P. A. Gray, A. van Oudenaarden, D. H. Rowitch, C. D. Stiles, Q. Ma, S. M. Grimmond, T. L. Bailey, M. H. Little, and A. P. McMahon
Development 139, 1863 (2012).
Download Reprint (PDF) | PubMed

Using gene expression noise to understand gene regulation
B. Munsky, G. Neuert, and A. van Oudenaarden
Science 336, 183 (2012).
Download Reprint (PDF) | PubMed

A conserved cell growth cycle can account for the environmental stress responses of divergent eukaryotes
N. Slavov, E. Airoldi, A. van Oudenaarden, and D. Botstein
Molecular Biology of the Cell 23, 1986 (2012).
Download Reprint (PDF) | PubMed

A critical role for the Wnt effector Tcf4 in adult intestinal homeostatic self-renewal
J. H. van Es, A. Haegebarth, P. Kujala, S. Itzkovitz, B. K. Koo, S. F. Boj, J. Korving, M. van den Born, A. van Oudenaarden, S. Robine, H. Clevers
Molecular & Cellular Biology 32, 1918 (2012).
Download Reprint (PDF) | PubMed

Slug and sox9 cooperatively determine the mammary stem cell state
W. Guo, Z. Keckesova, J. L. Donaher, T. Shibue, V. Tischler, F. Reinhardt, S. Itzkovitz, A. Noske, U. Zürrer-Härdi, G. Bell, W. L. Tam, S. A. Mani, A. van Oudenaarden, and R. A. Weinberg
Cell 148, 1015 (2012).
Download Reprint (PDF) |SupInfo
| PubMed

When noisy neighbors are a blessing: analysis of gene expression noise identifies coregulated genes
J. P. Junker and A. van Oudenaarden
Molecular Cell 45, 437 (2012).
Download Reprint (PDF)
| PubMed

Optimality in the development of intestinal crypts
S. Itzkovitz, I. C. Blat, T. Jacks, H. Clevers, and A. van Oudenaarden
Cell 148, 608 (2012).
Download Reprint (PDF) |SupInfo
| PubMed

Single-cell analysis reveals that noncoding RNAs contribute to clonal heterogeneity by modulating transcription factor recruitment
S. Bumgarner, G. Neuert, B. F. Voight, A. Symbor-Nagrabska, P. Grisafi, A. van Oudenaarden, and G. R. Fink
Molecular Cell 45, 470 (2012).
Download Reprint (PDF) | SupInfo
| PubMed | Preview

Single-molecule transcript counting of stem-cell markers in the mouse intestine
S. Itzkovitz, A. Lyubimova, I. C. Blat, M. Maynard, J. van Es, J. Lees, T. Jacks, H. Clevers, and A. van Oudenaarden
Nature Cell Biology 14, 106 (2012).
Download Reprint (PDF)
| PubMed

The thrombospondin repeat containing protein MIG-21 controls a left-right asymmetric Wnt signaling response in migrating C. elegans neuroblasts
T. C. Middelkoop, L. Williams, P. T. Yang, M. C. Betist, N. Ji, A. van Oudenaarden, C. Kenyon, and H. C. Korswagen
Developmental Biology 361, 338 (2012).
Download Reprint (PDF)
| PubMed

2011

The Caenorhabditis elegans synthetic multivulva genes prevent Ras pathway activation by tightly repressing global ectopic expression of lin-3 EGF
A. M. Saffer, D. H. Kim, A. van Oudenaarden, and H. R. Horvitz
PLoS Genetics 7, e1002418 (2011).
Download Reprint (PDF)
| PubMed

MicroRNAs can generate thresholds in target gene expression
S. Mukherji, M. S. Ebert, G. X. Y. Zheng, J. S. Tsang, P. A. Sharp, and A. van Oudenaarden
Nature Genetics 43, 854 (2011).
Download Reprint (PDF) | SupInfo
| PubMed

A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion in C. elegans
H. S. Seidel, M. Ailion, J. Li, A. van Oudenaarden, M. V. Rockman, and L. Kruglyak
PLoS Biology
9, e1001115 (2011)
.
Download Reprint (PDF) | PubMed

Neuroblast migration along the anteroposterior axis of C. elegans is controlled by opposing gradients of Wnts and a secreted Frizzled-related protein
M. Harterink, D. H. Kim, T. C. Middelkoop, T. D. Doan, A. van Oudenaarden, and H. C. Korswagen
Development
138, 2915 (2011)
.
Download Reprint (PDF) | PubMed

RNA sequencing reveals two major classes of gene expression levels in metazoan cells
D. Hebenstreit, M. Fang, M. Gu, V. Charoensawan, A. van Oudenaarden, and S. A. Teichmann
Molecular Systems Biology
7; doi: 10.1038/msb.2011.28 (2011)
.
Download Reprint (PDF) | PubMed

Genes methylated by DNA methyltransferase 3b are similar in mouse intestine and human colon cancer
E. J. Steine, M. Ehrich, G. W. Bell, A. Raj, S. Reddy, A. van Oudenaarden, R. Jaenisch, and H. G. Linhart
Journal of Clinical Investigation
121, 1748 (2011)
.
Download Reprint (PDF) | PubMed

Validating transcripts with probes and imaging technology
S. Itzkovitz and A. van Oudenaarden
Nature Methods
8, S12 (2011).

Download Reprint (PDF) | PubMed

Cellular decision making and biological noise: from microbes to mammals
G. Balázsi, A. van Oudenaarden, and J. J. Collins
Cell
144, 910 (2011).

Download Reprint (PDF) | PubMed

Caenorhabditis elegans aristaless/Arx gene alr-1 restricts variable gene expression
I. Topalidou, A. van Oudenaarden, and M. Chalfie
PNAS
108, 4063 (2011).

Download Reprint (PDF) | PubMed

2010

Coupling cellular oscillators - Circadian and cell division cycles in cyanobacteria
B. Pando and A. van Oudenaarden
Current Opinion in Genetics & Development
20, 613 (2010).

Download Reprint (PDF) | PubMed

Imaging single mRNA molecules in yeast
H. Youk, A. Raj, and A. van Oudenaarden
Methods in Enzymology 470, 429 (2010).
Download Reprint (PDF) | PubMed

A general mechanism for network-dosage compensation in gene circuits
M. Acar, B. F. Pando, F. H. Arnold, M. B. Elowitz, and A. van Oudenaarden
Science 329, 1656 (2010).
Download Reprint (PDF)
| PubMed | SupInfo

Altruistic defence
H. Youk and A. van Oudenaarden
Nature 467, 34 (2010).
Download Reprint (PDF)| PubMed

Transcript counting in single cells reveals dynamics of rDNA transcription
R. Z. Tan and A. van Oudenaarden
Molecular Systems Biology 6; doi:10.1038/msb.2010.14 (2010).
Download Reprint (PDF) | PubMed | SupInfo

Genome-wide dissection of microRNA functions and cotargeting networks using gene set signatures
J. S. Tsang, M. S. Ebert, and A. van Oudenaarden
Molecular Cell 38, 140 (2010).
Download Reprint (PDF) | PubMed | SupInfo

Circadian gating of the cell cycle revealed in single cyanobacterial cells
Q. Yang, B. F. Pando, G. Dong, S. S. Golden, and A. van Oudenaarden
Science 327, 1522 (2010).
Download Reprint (PDF) | PubMed | SupInfo
| MIT news

Elevated ATPase activity of KaiC applies a circadian checkpoint on cell division in Synechococcus elongatus
G. Dong, Q. Yang, Q. Wang, Y. Kim, T. L. Wood, K. W. Osteryoung, A. van Oudenaarden, and S. S. Golden
Cell 140, 529 (2010).
Download Reprint (PDF) | PubMed | Cell Preview | SupInfo

Variability in gene expression underlies incomplete penetrance
A. Raj, S. A. Rifkin, E. Andersen, and A. van Oudenaarden
Nature 463, 913 (2010).
Download Reprint (PDF) | PubMed | SupInfo
| Slidecast
News & Views | Cell Preview | Nature Reviews Genetics | NRC handelsblad | MIT news | National Public Radio

2009

Growth landscape formed by perception and import of glucose in yeast
H. Youk and A. van Oudenaarden
Nature 462, 875 (2009).
Download Reprint (PDF)| PubMed |SupInfo

Synthetic biology: understanding biological design from synthetic circuits
S. Mukherji and A. van Oudenaarden
Nature Reviews Genetics 10, 859 (2009).
Download Reprint (PDF)| PubMed

Direct cell reprogramming is a stochastic process amenable to acceleration
J. Hanna, K. Saha, B. Pando, J. van Zon, C. J. Lengner, M. P. Creyghton, A. van Oudenaarden, and R. Jaenisch
Nature
462, 595 (2009).
Download Reprint (PDF)| PubMed |SupInfo

A systems-level analysis of perfect adaptation in yeast osmoregulation
D. Muzzey, C. A. Gómez-Uribe, J. T. Mettetal, and A. van Oudenaarden
Cell 138, 160 (2009).
Download Reprint (PDF) | PubMed | SupInfo

Quantitative time-lapse fluorescence microscopy in single cells
D. Muzzey and A. van Oudenaarden
Annual Review of Cell and Developmental Biology 25, 301 (2009).
Download Reprint (PDF) | PubMed

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
A. M. Khalil, M. Guttman, M. Huarte, M. Garber, A. Raj, D. Rivea Morales, K. Thomas, A. Presser, B. E. Bernstein, A. van Oudenaarden, A. Regev, E. S. Lander, and J. L. Rinn
PNAS 106, 11667 (2009).
Download Reprint (PDF) | PubMed | SupInfo

Single-molecule approaches to stochastic gene expression
A. Raj and A. van Oudenaarden
Annual Review of Biophysics 38, 255 (2009).
Download Reprint (PDF) | PubMed

Snowdrift game dynamics and facultative cheating in yeast
J. Gore, H Youk, and A. van Oudenaarden
Nature 459, 253 (2009).
Download Reprint (PDF) | PubMed | SupInfo | MIT news

Population genomics of domestic and wild yeasts
G. Liti, D. M. Carter, A. M. Moses, J. Warringer, L. Parts, S. A. James, R. P. Davey, I. N. Roberts, A. Burt, V. Koufopanou, I. J. Tsai, C. M. Bergman, D. Bensasson, M. J. O'Kelly, A. van Oudenaarden, D. B. Barton, E. Bailes, A. N. Nguyen, M. Jones, M. A. Quail, I. Goodhead, S. Sims, F. Smith, A. Blomberg, R. Durbin, and E. J. Louis
Nature
458, 337 (2009).
Download Reprint (PDF) | PubMed

The yin and yang of nature
J. Gore and A. van Oudenaarden
Nature 457, 271 (2009).
Download Reprint (PDF) | PubMed

Repetitive sequence variation and dynamics in the ribosomal DNA array of Saccharomyces cerevisiae as revealed by whole-genome resequencing
S. A. James, M. J. O'Kelly, D. M. Carter, R. P. Davey, A. van Oudenaarden, and I. N. Roberts
Genome Research 19, 626 (2009).
Download Reprint (PDF) | PubMed

2008

Nature, nurture, or chance: Stochastic gene expression and its consequences
A. Raj and A. van Oudenaarden
Cell 135, 216 (2008).
Download Reprint (PDF) | PubMed

Imaging individual mRNA molecules using multiple singly labeled probes
A. Raj, P. van den Bogaard, S. A. Rifkin, A. van Oudenaarden, and S. Tyagi
Nature Methods 5, 877 (2008).
Download Reprint (PDF) | PubMed | SupInfo | Probe Design Website | Spot Detection Software

Stochastic switching as a survival strategy in fluctuating environments
M. Acar, J. T. Mettetal, and A. van Oudenaarden
Nature Genetics 40, 471 (2008).
Download Reprint (PDF) | PubMed | SupInfo

The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae
J. T. Mettetal, D. Muzzey, C. Gomez-Uribe, and A. van Oudenaarden
Science 319, 482 (2008).
Download Reprint (PDF) | PubMed | SupInfo | Perspectives | News & Views | MIT news

Power-limited contraction dynamics of Vorticella convallaria: an ultrafast biological spring
A. Upadhyaya, M. Baraban, J. Wong, A. van Oudenaarden, and L. Mahadevan
Biophysical Journal 94, 265 (2008).
Download Reprint (PDF) | PubMed | New & Notable

2007

Stochastic gene expression out-of-steady-state in the cyanobacterial circadian clock
J. R. Chabot, J. M. Pedraza, P. Luitel, and A. van Oudenaarden
Nature 450, 1249 (2007).
Download Reprint (PDF) | PubMed | Movies | SupInfo

Heritable stochastic switching revealed by single-cell genealogy
B. B. Kaufmann, Q. Yang, J. T. Mettetal, and A. van Oudenaarden
PLoS Biology 5, e239 (2007).
Download Reprint (PDF) | PubMed | SupInfo | Movies

Necessary noise
J. T. Mettetal and A. van Oudenaarden
Science 317, 463 (2007).
Download Reprint (PDF) | PubMed

MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals
J. Tsang, J. Zhu, and A. van Oudenaarden
Molecular Cell 26, 753 (2007).
Download Reprint (PDF) | PubMed | SupInfo

Stochastic gene expression: from single molecules to the proteome
B. B. Kaufmann and A. van Oudenaarden
Current Opinion in Genetics and Development 17, 107 (2007).
Download Reprint (PDF) | PubMed

A multistep epigenetic switch enables the stable inheritance of DNA methylation states
H. N. Lim and A. van Oudenaarden
Nature Genetics 39, 269 (2007).
Download Reprint (PDF) | PubMed | News & Views | SupInfo

2006

When it comes to decisions, myeloid progenitors crave positive feedback
D. Muzzey and A. van Oudenaarden
Cell 126, 650 (2006).
Download Reprint (PDF) | PubMed

Cellular asymmetry and individuality in directional sensing
A. Samadani, J. T. Mettetal, and A. van Oudenaarden
PNAS 103, 11549 (2006).
Download Reprint (PDF) | PubMed

Exciting fluctuations: monitoring competence induction dynamics at the single-cell level
J. Tsang and A. van Oudenaarden
Molecular Systems Biology 2, doi:10.1038/msb4100064 (2006).
Download Reprint (PDF) | PubMed

Predicting stochastic gene expression dynamics in single cells
J. T. Mettetal, D. Muzzey, J. M. Pedraza, E. M. Ozbudak, and A. van Oudenaarden
PNAS 103, 7304 (2006).
Download Reprint (PDF) | PubMed

Neutrophil chemorepulsion in defined interleukin-8 gradients in vitro and in vivo.
W. G. Tharp, R. Yadav, D. Irimia, A. Upadhyaya, A. Samadani, O. Hurtado, S. Y. Liu, S. Munisamy, D. M. Brainard, M. J. Mahon, S. Nourshargh, A. van Oudenaarden, M. G. Toner, M. C. Poznansky
Journal of Leukocyte Biology 79, 539 (2006).
PubMed

Noise in gene regulatory networks [book chapter]
J. M. Pedraza and A. van Oudenaarden
in 'Complex Systems Science in BioMedicine' (Kluwer Academic, New York, 2006).

2005

A system of counteracting feedback loops regulates Cdc42p actvity during spontaneous cell polarization
E. M. Ozbudak, A. Becskei, and A. van Oudenaarden
Developmental Cell 9, 565 (2005).

Download Reprint (PDF) | PubMed | Current Biology Dispatch | Movies | SupInfo

Contributions of low molecule number and chromosomal positioning to stochastic gene expression
A. Becskei, B. B. Kaufmann, and A. van Oudenaarden
Nature Genetics 37, 937 (2005).
Download Reprint (PDF) | PubMed | News & Views | SupInfo

Enhancement of cellular memory by reducing stochastic transitions
M. Acar, A. Becskei, and A. van Oudenaarden
Nature 435, 228 (2005).
Download Reprint (PDF) | PubMed | News & Views | SupInfo

Noise propagation in gene networks
J. M. Pedraza and A. van Oudenaarden
Science 307, 1965 (2005).
Download Reprint (PDF) | PubMed | News & Views | Perspectives | SupInfo

2004

Actin polymerization: forcing flat faces forward
A. Upadhyaya and A. van Oudenaarden
Current Biology 14, R467 (2004).
Download Reprint (PDF) | PubMed

Stochastic gene expression in fluctuating environments
M. Thattai and A. van Oudenaarden
Genetics 167, 523 (2004).

Download Reprint (PDF) | PubMed

Amplitude control of cell-cycle waves by nuclear import
A. Becskei, M. G. Boselli, and A. van Oudenaarden
Nature Cell Biology 6, 451 (2004).
Download Reprint (PDF) | PubMed

Elastic instability in growing yeast colonies
B. Nguyen, A. Upadhyaya, A. van Oudenaarden, and M. P. Brenner
Biophysical Journal 86, 2740 (2004).
Download Reprint (PDF) | PubMed

Multistability in the lactose utilization network of Escherichia coli
E. M. Ozbudak, M. Thattai, H. N. Lim, B. I. Shraiman, and A. van Oudenaarden
Nature 427, 737 (2004).
Download Reprint (PDF) | PubMed | SupInfo

2003

Motility of Escherichia coli cells in clusters formed by chemotactic aggregation
N. Mittal, E. O. Budrene, M. P. Brenner, and A. van Oudenaarden
PNAS 100, 13259 (2003).
Download Reprint (PDF) | PubMed | Movies

Biomimetic systems for studying actin-based motility
A. Upadhyaya and A. van Oudenaarden
Current Biology 13, R734 (2003).
Download Reprint (PDF) | PubMed

Probing polymerization forces by using actin-propelled lipid vesicles
A. Upadhyaya, J. R. Chabot, A. Andreeva, A. Samadani, and A. van Oudenaarden
PNAS 100, 4521 (2003).
Download Reprint (PDF) | PubMed | Movies

2002

Attenuation of noise in ultrasensitive signaling cascades
M. Thattai and A. van Oudenaarden
Biophysical Journal 82, 2943 (2002).
Download Reprint (PDF) | PubMed

Regulation of noise in the expression of a single gene
E. M. Ozbudak, M. Thattai, I. Kurtser, A. D. Grossman, and A. van Oudenaarden
Nature Genetics 31, 69 (2002).
Download Reprint (PDF) | PubMed | News & Views

2001

Intrinsic noise in gene regulatory networks
M. Thattai and A. van Oudenaarden
PNAS 98, 8614 (2001).
Download Reprint (PDF) | PubMed

1999

Cooperative symmetry breaking by actin filament polymerization in a model for cell motility
A. van Oudenaarden and J. A. Theriot
Nature Cell Biology 1, 493 (1999).
Download Reprint (PDF) | PubMed | News & Views | Movies

Brownian ratchets: a lipid bilayer supported by a patterned array
A. van Oudenaarden and S. G. Boxer
Science 285, 1046 (1999).
Download Reprint (PDF) | PubMed

Motility of ActA protein-coated microspheres driven by actin polymerization
L. A. Cameron, M. J. Footer, A. van Oudenaarden, and J. A. Theriot
PNAS 96, 4908 (1999).

Download Reprint (PDF) | PubMed | Movies

Phase transition in a chain of quantum vortices
C. Bruder, L. I. Glazman, A. I. Larkin, J. E. Mooij, and A. van Oudenaarden
Physical Review B 59, 1383 (1999).
Download Reprint (PDF)

1998

Manipulation of supported lipid bilayers
S. G. Boxer, J. T. Groves, N. Ulman, A. van Oudenaarden, J. Johnson, L. Kung, P. Cremer
Abstract of papers of the American chemical society 216, 254 (1998).

Scanning tunneling microscope tip as a positionable contact: probing a Josephson-junction array at subkelvin temperatures
J. W. G. Wildoer, A. van Oudenaarden, C. J. P. M. Harmans, and H. van Kempen
Journal of vacuum science and technology B 16, 2837 (1998).

One-dimensional Mott localization of quantum vortices in Josephson-junction arrays
A. van Oudenaarden, B. van Leeuwen, M. P. M. Robbens, and J. E. Mooij
Physical Review B 57, 11684 (1998).
Download Reprint (PDF)

Giant higher harmonic generation in mesoscopic metal wires and rings interrupted by tunnel junctions
A. van Oudenaarden, Yu. V. Nazarov, and J. E. Mooij
Physical Review B 57, 8816 (1998).
Download Reprint (PDF)

Magneto-electric Aharonov-Bohm effect in metal rings
Alexander van Oudenaarden, Michel H. Devoret, Yu.V. Nazarov, and J.E. Mooij
Nature 391, 768 (1998).
Download Reprint (PDF)

1997

Conductance fluctuations in a metallic wire interrupted by a tunnel junction
A. van Oudenaarden, M. H. Devoret, E. H. Visscher, Yu. V. Nazarov, and J. E. Mooij
Physical Review Letters 78, 3539 (1997).
Download Reprint (PDF)

1996

One-dimensional localization of quantum vortices in disordered Josephson junction arrays
A. van Oudenaarden, S.J.K. Vardy, and J.E. Mooij
Physical Review Letters 77, 4257 (1996).
Download Reprint (PDF)

One-dimensional Mott insulator formed by quantum vortices in Josephson junction arrays
A. van Oudenaarden and J.E. Mooij
Physical Review Letters 76, 4947 (1996).
Download Reprint (PDF)

Quantum vortices in periodic and disordered one-dimensional lattices
A. van Oudenaarden and J. E. Mooij
in 'Nanowires', NATO ASI Series,
edited by P. A. Serena and N. Garcia, 373 (1997).

Bloch vortices in one-dimensional Josephson junction arrays
A. van Oudenaarden, S. J. K. Vardy, and J. E. Mooij
in 'Proceedings of the 21st international conference on low temperature physics, (Prague, 1996);
also published in Czechoslovak Journal of Physics 46 Suppl. S2, 707 (1996).

One-dimensional Mott insulator formed by quantum vortices in Josephson junction arrays
A. van Oudenaarden and J. E. Mooij
in 'Proceedings of 'Localization 96',
edited by T. Dietl (Jaszowiec, Poland, 1996), p. 79.

1995

Vortex dynamics in small arrays of underdamped Josephson junctions

A. van Oudenaarden, S. L. Yeung, and J. E. Mooij
in 'Macroscopic quantum phenomena and coherence in superconducting networks',
edited by C. Giovanella and M. Tinkham (World Scientific, Singapore, 1995).

1994

Internal stresses in amorphous FeNiB studied by neutron depolarization

M. de Jong, A. van Oudenaarden, J. Sietsma, M. Th. Rekveldt, and A. van den Beukel
Acta Physica Hungarica 75, 91 (1994).

Internal stress distribution in amorphous FeNiB studied by field dependent neutron depolarization
A. van Oudenaarden, M. de Jong, J. Sietsma, M. Th. Rekveldt, and A. van den Beukel
Journal of Magnetism and Magnetic Materials 133, 251 (1994).