Selected publications

van Oudenaarden group

For a full publication list search PubMed for articles by Alexander van Oudenaarden.
PDF files are for personal use only.

B. Munsky, G. Neuert, and A. van Oudenaarden,
Using gene expression noise to understand gene regulation,
Science 336, 183-187 (2012)[pdf].

S. Itzkovitz, A. Lyubimova, I.C. Blat, M. Maynard, J. van Es, J. Lees, T. Jacks, H. Clevers, A. van Oudenaarden,
Single-molecule transcript counting of stem-cell markers in the mouse intestine,
Nature Cell Biology 14, 106-114 (2012)[pdf].

S. Itzkovitz, I. Blat, T. Jacks, H. Clevers, and A. van Oudenaarden,
Optimality in development of intestinal crypts,
Cell, 148, 608-619 (2012)[pdf].

S. Mukherji, M.S. Ebert, G. X. Y. Zheng, J.S. Tsang, P.A. Sharp, and A. van Oudenaarden,
MicroRNAs can generate thresholds in target gene expression,
Nature Genetics 43, 854-859 (2011)[pdf].

S. Itzkovitz and A. van Oudenaarden,
Validating transcripts with probes and imaging technology,
Nature Methods 8, S12-S19 (2011)[pdf].

G. Balázsi, A. van Oudenaarden, and J.J. Collins,
Cellular decision-making and biological noise: from microbes to mammals,
Cell 144, 910-925 (2011)[pdf].

M. Acar, B.F. Pando, F.H. Arnold, M.B. Elowitz, and A. van Oudenaarden,
A general mechanism for network-dosage compensation in gene networks,
Science 329, 1656-1660 (2010)[pdf].

J.S. Tsang, M.S. Ebert, and A. van Oudenaarden,
Genome-wide dissection of microRNA functions and cotargeting networks using gene set signatures,
Molecular Cell 38, 140-153 (2010)[pdf].

Q. Yang, B. F. Pando, G. Dong, S. S. Golden, and A. van Oudenaarden,
Circadian gating of the cell cycle revealed in single cyanobacterial cells,
Science 327, 1522-1526 (2010)[pdf].

A. Raj, S.A. Rifkin, E. Andersen, and A. van Oudenaarden,
Variability in gene expression underlies incomplete penetrance,
Nature 463, 913918 (2010)[pdf].

H. Youk and A. van Oudenaarden,
Growth landscape formed by perception and import of glucose in yeast,
Nature 462, 875-880 (2009)[pdf].

S. Mukherji and A. van Oudenaarden,
Synthetic biology: Understanding biological design from synthetic circuits,
Nature Review Genetics 10, 859-871 (2009)[pdf].

J. Hanna, K. Saha, B. Pando, J. van Zon, C.J. Lengner, M.P. Creyghton, A. van Oudenaarden, and R. Jaenisch,
Direct cell reprogramming is a stochastic process amenable to acceleration,
Nature 462, 595-603 (2009)[pdf].

D. Muzzey, C. Gomez-Uribe, J.T. Mettetal, and A. van Oudenaarden,
A systems-level analysis of perfect adaptation in yeast osmoregulation,
Cell 138, 160-171 (2009)[pdf].

J. Gore, H. Youk, and A. van Oudenaarden,
Snowdrift game dynamics and facultative cheating in yeast,
Nature 459, 253-256 (2009)[pdf].

A. Raj and A. van Oudenaarden,
Nature, nurture, or chance: Stochastic gene expression and its consequences,
Cell 135, 216-226 (2008)[pdf].

A. Raj, P. van den Bogaard, S.A. Rifkin, A. van Oudenaarden, and S. Tyagi,
Imaging individual mRNA molecules using multiple singly labeled probes,
Nature Methods 5, 877-879 (2008)[pdf].

M. Acar, J.T. Mettetal, and A. van Oudenaarden,
Stochastic switching as a survival strategy in fluctuating environments,
Nature Genetics 40, 471-475 (2008)[pdf].

J.T. Mettetal, D. Muzzey, C. Gomez-Uribe, and A. van Oudenaarden,
The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae,
Science 319, 482-484 (2008)[pdf].

J.R. Chabot, J.M. Pedraza, P. Luitel, and A. van Oudenaarden,
Stochastic gene expression out-of-steady-state in the cyanobacterial circadian clock,
Nature 450, 1249-1252 (2007)[pdf].

J. Tsang, J. Zhu, and A. van Oudenaarden,
MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals,
Molecular Cell 26, 753-767 (2007)[pdf].

H.N. Lim and A. van Oudenaarden,
A multistep epigenetic switch enables the stable inheritance of DNA methylation states,
Nature Genetics 39, 269-275 (2007)[pdf].

A. Becskei, B.B. Kaufmann, and A. van Oudenaarden,
Contributions of low molecule number and chromosomal positioning to stochastic gene expression,
Nature Genetics 37, 937-944 (2005)[pdf].

M. Acar, A. Becskei, and A. van Oudenaarden,
Enhancement of cellular memory by reducing stochastic transitions,
Nature 435, 228 (2005)[pdf].

J.M. Pedraza and A. van Oudenaarden,
Noise propagation in gene networks,
Science 307, 1965-1969 (2005)[pdf].

A. Becskei, M.G. Boselli, and A. van Oudenaarden,
Amplitude control of cell-cycle waves by nuclear import,
Nature Cell Biology 6, 451 (2004)[pdf].

E.M. Ozbudak, M. Thattai, H.N. Lim, B.I. Shraiman, and A. van Oudenaarden,
Multistability in the lactose utilization network of Escherichia coli,
Nature 427, 737 (2004)[pdf].

E. Ozbudak, M. Thattai, I. Kurtser, A.D. Grossman and A. van Oudenaarden,
Regulation of noise in the expression of a single gene,
Nature Genetics 31, 69 (2002)[pdf].

M. Thattai and A. van Oudenaarden,
Intrinsic noise in gene regulatory networks,
Proceedings of the National Academy of Sciences USA 98, 8614 (2001)[pdf].

About the group leader