#  Publications 

 



**2016**

Potvin-Trottier, L., Lord, N. D., Vinnicombe, G., & Paulsson, J. (2016). Synchronous long-term oscillations in a synthetic gene circuit. **Nature**, 538, [514–517](http://www.nature.com/nature/journal/vaop/ncurrent/full/nature19841.html)

Okumus B, Landgraf D, Lai GC, Bakhsi S, Arias-Castro JC, Yildiz S, Huh D, Fernandez-Lopez R, Peterson CN, Toprak E, El Karoui M, Paulsson J. (2016) Mechanical slowing-down of cytoplasmic diffusion allows in vivo counting of proteins in individual cells. **Nat. Commun.** 18, [11641](http://www.nature.com/articles/ncomms11641).

Hilfinger A, Norman, TM, Paulsson J. (2016). Exploiting natural fluctuations to identify kinetic mechanisms in sparsely characterized system. **Cell Systems**, 2 (4), [251-259](http://www.cell.com/cell-systems/abstract/S2405-4712(16)30110-7)

Uphoff S., Lord N.D., Potvin-Trottier L., Okumus B., Sherratt D.J., Paulsson J., (2016) Stochastic activation of a DNA damage response causes cell-to-cell mutation rate variation. **Science** 351, 6277, [1094-1097](http://science.sciencemag.org/content/351/6277/1094)

Hilfinger A, Norman, TM, Vinnicombe, G, Paulsson J. (2016). Constraints on Fluctuations in Sparsely Characterized Biological Systems. **Phys. Rev. Lett.**. 116, [058101](http://journals.aps.org/prl/abstract/10.1103/PhysRevLett.116.058101).

Jajoo, R., Jung, Y., Huh, D., Viana, M. P., Rafelski, S. M., Springer, M., & Paulsson, J. (2016). Accurate concentration control of mitochondria and nucleoids. **Science**, 351(6269), 169–172. PMID: [26744405](http://sfx.hul.harvard.edu/hvd?url_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&__char_set=utf8&rft_id=info:pmid/26744405&rfr_id=info:sid/libx:hul.harvard&rft.genre=article)

Ke N, Landgraf D, Paulsson J, Berkmen M.. (2016). Visualization of periplasmic and cytoplasmic proteins with a self-labeling protein tag. **Journal of Bacteriology**. 00864-15 . PMID: [26787765](http://sfx.hul.harvard.edu/hvd?url_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&__char_set=utf8&rft_id=info:pmid/26332088&rfr_id=info:sid/libx:hul.harvard&rft.genre=article).

**2015**  
Hilfinger A, Paulsson J. (2015). Systems biology: Defiant daughters and coordinated cousins. **Nature**. 519 (7544): 422-3. PMID: [25762142](http://www.ncbi.nlm.nih.gov/pubmed/25762142).

Norman, TM, Lord, ND, Paulsson, J & Losick, R. (2015). Stochastic Switching of Cell Fate in Microbes. **Annual Review of Microbiology**. 69: 381-403 . PMID: [26332088](http://sfx.hul.harvard.edu/hvd?url_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&__char_set=utf8&rft_id=info:pmid/26332088&rfr_id=info:sid/libx:hul.harvard&rft.genre=article).

**2014**  
Taheri-Araghi S, Bradde S, Sauls JT, Hill NS, Levin PA, Paulsson J, Vergassola M, Jun S. (2014). Cell-size control and homeostasis in bacteria. **Curr Biol**. 25 (3): 385-91. PMCID: [PMC4323405](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4323405/?tool=mybib)

**2013**  
Norman, TM, Lord, ND, Paulsson, J & Losick, R. (2013). Memory and modularity in cell-fate decision making. **Nature.** 503 (7477): 481-6. PMCID: [PMC4019345](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4019345/?tool=nihms)

Lau, B.T., Malkus, P. & Paulsson, J. (2013). New quantitative methods for measuring plasmid loss rates reveal unexpected stability. **Plasmid**, 70(3):353-61. PMCID: [PMC3966108](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3966108/).

Toprak, E., Veres, A., Yildiz, S., Pedraza, J.M., Chait, R., Paulsson, J. & Kishony, R. (2013). Building a morbidostat: an automated continuous-culture device for studying bacterial drug resistance under dynamically sustained drug inhibition. **Nat Protoc.**, 8 (3): 555-67. PMCID: [PMC3708598](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3708598/).

**2012**  
Hilfinger, A., Chen, M. & Paulsson, J. (2012). Using temporal correlations and full distributions to separate intrinsic and extrinsic fluctuations in biological systems. **Phys Rev Lett.**, 109(24):248104. PMCID: [PMC3697929](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3697929/).

Landgraf, D., Okumus, B., Chien, P., Baker, T.A. & Paulsson, J. (2012). Segregation of molecules at cell division reveals native protein localization. **Nat Methods**, 8;9(5):480-2. PMCID: [PMC3779060](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3779060/).

Tal, S. & Paulsson, J. (2012). Evaluating quantitative methods for measuring plasmid copy numbers in single cells. **Plasmid**, 67(2):167-73. PMCID: [PMC3709585](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3709585/).

**2011**  
Huh, D. & Paulsson, J. (2011). Random partitioning of molecules at cell division. **Proc Natl Acad Sci USA.**, 108(36):15004-9. PMCID: [PMC3169110](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3169110/).

Hilfinger, A. & Paulsson, J. (2011). Separating intrinsic from extrinsic fluctuations in dynamic biological systems[.](http://www.ncbi.nlm.nih.gov/pubmed/21730172) **Proc Natl Acad Sci USA.**, 108(29):12167-72. PMCID: [PMC3141918](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3141918/).

Huh, D. & Paulsson, J. (2011). Non-genetic heterogeneity from stochastic partitioning at cell division. **Nat Genet.**, 43(2):95-100. PMCID: [PMC3208402](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3208402/).

**2010**  
Lestas, I., Vinnicombe, G. & Paulsson J. (2010). Fundamental limits on the suppression of molecular fluctuations. **Nature,** 467(7312):174-8. PMCID: [PMC2996232](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2996232/).

**2008**  
Pedraza, J.M. & Paulsson, J. (2008). [Effects of molecular memory and bursting on fluctuations in gene expression.](http://www.ncbi.nlm.nih.gov/pubmed/18202292) **Science**, 319(5861):339-43.

Lestas, I., Paulsson, J., Ross, N.E. & Vinnicombe, G. (2008). Noise in gene regulatory networks. **IEEE transactions on automatic control, Regular Papers** (Special Issue on Systems Biology):189-200.

**2007**  
Pedraza, J.M. & Paulsson, J. (2007). Random timing in signaling cascades. **Mol Syst Biol.**, 3:81. PMCID: [PMC1828750](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1828750/).

**2006**  
Rando, O.J. & Paulsson, J. (2006). Noisy silencing of chromatin. **Dev Cell.**, 11(2):134-6.

Paulsson, J. & Chattoraj, D.K. (2006). [Origin inactivation in bacterial DNA replication control.](http://www.ncbi.nlm.nih.gov/pubmed/16824091) **Mol Microbiol.**, 61(1):9-15.

Bar-Even, A., Paulsson, J., Maheshri, N., Carmi, M., O'Shea, E., Pilpel, Y. & Barkai, N. (2006). [Noise in protein expression scales with natural protein abundance.](http://www.ncbi.nlm.nih.gov/pubmed/16715097) **Nat Genet.**, 38(6):636-43.

Springer, M. & Paulsson, J. (2006). [Biological physics: harmonies from noise.](http://www.ncbi.nlm.nih.gov/pubmed/16397487) **Nature,** 439(7072):27-8.

**2005**  
Golding, I., Paulsson, J., Zawilski, S.M. & Cox, E.C. (2005). [Real-time kinetics of gene activity in individual bacteria.](http://www.ncbi.nlm.nih.gov/pubmed/16360033) **Cell,** 123(6):1025-36.

Paulsson, J. (2005). [Prime movers of noisy gene expression.](http://www.ncbi.nlm.nih.gov/pubmed/16132049) **Nat Genet.**, 37(9):925-6.

Paulsson, J. (2005). Models of Stochastic Gene Expression. **Phys. Life Rev.**, 2:157-175.

Das, N., Valjavec-Gratian, M., Basuray, A.N., Fekete, R.A., Papp, P.P., Paulsson, J. & Chattoraj, D.K. (2005). Multiple homeostatic mechanisms in the control of P1 plasmid replication. **Proc Natl Acad Sci USA.**, 102(8):2856-61. PMCID: [PMC549481](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC549481/).

**2004**  
Paulsson, J. (2004). [Summing up the noise in gene networks.](http://www.ncbi.nlm.nih.gov/pubmed/14749823) **Nature,** 427(6973):415-8.

Olsson, J.A., Paulsson, J. & Nordström, K. (2004). Effect of the CopB auxiliary replication control system on stability of maintenance of Par(+) plasmid R1. **J. Bacteriol.**, 186(1):207-11. PMCID: [PMC303431](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC303431/).

**2003**  
Elf, J., Paulsson, J., Berg, O.G. & Ehrenberg M. (2003). Near-critical phenomena in intracellular metabolite pools. **Biophys J.**, 84(1):154-70. PMCID: [PMC1302600](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1302600/).

**2002**  
Paulsson, J. (2002). Multileveled selection on plasmid replication. **Genetics**, 161(4):1373-84. PMCID: [PMC1462198](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462198/).

**2001**  
Park, K., Han, E., Paulsson, J. & Chattoraj, D.K. (2001). [Origin pairing ('handcuffing') as a mode of negative control of P1 plasmid copy number.](http://www.ncbi.nlm.nih.gov/pubmed/11743008) **EMBO J**., 20(24):7323-32. PMCID: [PMC125786](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC125786/).

Paulsson, J. & Ehrenberg, M. (2001). [Noise in a minimal regulatory network: plasmid copy number control.](http://www.ncbi.nlm.nih.gov/pubmed/11388089) **Q Rev Biophys.**, 34(1):1-59.

**2000**  
Berg, O.G., Paulsson, J. & Ehrenberg, M. (2000). Fluctuations in repressor control: thermodynamic constraints on stochastic focusing. **Biophys J.**, 79(6):2944-53. PMCID: [PMC1301173](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1301173/).

Berg, O.G., Paulsson, J. & Ehrenberg, M. (2000). Fluctuations and quality of control in biological cells: zero-order ultrasensitivity reinvestigated. **Biophys J.**, 79(3):1228-36. PMCID: [PMC1301019](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1301019/).

Paulsson, J., Berg, O.G. & Ehrenberg, M. (2000). Stochastic focusing: fluctuation-enhanced sensitivity of intracellular regulation. **Proc Natl Acad Sci USA.**, 97(13):7148-53. PMCID: [PMC16514](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC16514/).

Paulsson, J. & Ehrenberg, M. (2000). Random signal fluctuations can reduce random fluctuations in regulated components of chemical regulatory networks. **Phys Rev Lett.**, 84(23):5447-50.

Paulsson, J. & Ehrenberg, M. (2000). Molecular clocks reduce plasmid loss rates: the R1 case. **J Mol Biol.**, 297(1):179-92.

**1998**  
Paulsson, J. & Ehrenberg, M. (1998). Trade-off between segregational stability and metabolic burden: a mathematical model of plasmid ColE1 replication control. **J Mol Biol.**, 279(1):73-88.

Paulsson, J. Nordström, K. & Ehrenberg, M. (1998). Requirements for rapid plasmid ColE1 copy number adjustments: a mathematical model of inhibition modes and RNA turnover rates. **Plasmid**, 39(3):215-34.



 

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 Attachments- [  picture\_as\_pdf  Nature 2016 ](/sites/g/files/omnuum11536/files/paulsson/files/nature_2016.pdf)
 
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