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The Elowitz Lab

Publications

Antebi YE, Linton JM, Klumpe H, Bintu B, Gong M, Su C, McCardell R, Elowitz MB.
Combinatorial Signal Perception in the BMP Pathway
Cell. 2017 Sep 7;170(6):1184-1196. (pdf)
Preview: Vilar JMG, Saiz L. Cell Syst.

Elowitz M.
Cellular Demographies, Recorded
In: What Is Your Conceptual Definition of "Cell Type" in the Context of a Mature Organism?
Cell Syst. 2017 Mar 22;4(3):255-259.

Antebi YE, Nandagopal N, Elowitz M.
An operational view of intercellular signaling pathways
Curr Opin Syst Biol. 2017 Feb;1:16-24. (pdf)

Cai L, Elowitz M.
Writing and Reading Cellular MEMOIRs with CRISPR and seqFISH
In: Principles of Systems Biology, No. 13.
Cell Syst. 2017 Jan 25;4(1):3-6. (pdf)

Frieda KL, Linton JM, Hormoz S, Choi J, Chow KK, Singer ZS, Budde MW, Elowitz MB, Cai L.
Synthetic recording and in situ readout of lineage information in single cells
Nature. 2017 Jan 5;541:7635:107-111. (pdf)
News and Views: Beck L, Raj A. Nature. (pdf)

Hormoz S, Singer ZS, Linton JM, Antebi YE, Shraiman BI, Elowitz MB. Inferring Cell-State Transition Dynamics from Lineage Trees and Endpoint Single-Cell Measurements
Cell Syst. 2016 Nov 23;3(5):419-433. (pdf)

Gao XJ, Elowitz MB.
Synthetic Biology: Precision timing in a cell
Nature. 2016;538(7626):462-463. (pdf)

Kueh HY, Yui MA, Ng KK, Please SS, Zhang JA, Damie SS, Greedman G, Siu SS, Bernstein ID, Elowitz MB, Rothenberg EV.
Asynchronous combinatorial action of four regulatory factors activates Bcl11b for T cell commitment
Nat Immunol. 2016;17:956-965. (pdf)
News and Views: Georgopoulos K. Nat Immunol.

Lin Y, Elowitz MB.
Central Dogma Goes Digital
Mol Cell. 2016 Mar 17;61(6):791-792. (pdf)

Bintu L, Yong J, Antebi YE, McCue K, Kazuki Y, Uno N, Oshimura M, Elowitz MB.
Dynamics of epigenetic regulation at the single-cell level
Science. 2016 Feb 12;351(6274):720-724. (pdf)
Perspective: Keung AJ, Khalil AS. Science. (pdf)

Lin Y, Sohn CH, Dalal CK, Cai L, Elowitz MB.
Combinatorial gene regulation by modulation of relative pulse timing
Nature. 2015;527(7576):54-58. (pdf)

Markson, JS, Elowitz MB.
Synthetic Biology of Multicellular Systems: New Platforms and Applications for Animal Cells and Organisms
ACS Synth Biol. 2014 Dec;3:875-876. (pdf)

Levine JH, Elowitz MB.
Polyphasic feedback enables tunable cellular timers
Curr Biol. 2014 Oct 20;24(20):R994-R995. (pdf)

LeBon L, Lee TV, Sprinzak D, Jafar-Nejad H, Elowitz MB.
Fringe proteins modulate Notch-ligand cis and trans interactions to specify signaling states
eLIFE. 2014 Sep 25;3:e02950. (pdf)

Dalal CK, Cai L, Lin Y, Rahbar K, Elowitz MB.
Pulsatile Dynamics in the Yeast Proteome
Curr Biol. 2014 Sep 22;24(18):2189-2194. (pdf)

Singer ZS, Yong J, Tischler J, Hackett JA, Altinok A, Surani MA, Cai L, Elowitz MB.
Dynamic Heterogeneity and DNA Methylation in Embryonic Stem Cells
Mol Cell. 2014 Jul 17;55(2):319-331. (pdf)

Tan FE, Elowitz MB.
Brf1 posttranscriptionally regulates pluripotency and differentiation responses downstream of Erk MAP kinase
P Natl Acad Sci USA. 2014;111(17):E1740-E1748. (pdf)

Church GM, Elowitz MB, Smolke CD, Voigt CA, Weiss R.
Realizing the potential of synthetic biology
Nat Rev Mol Cell Bio. 2014 Mar 12;15:289-294. (pdf)

Levine JH, Lin Y, Elowitz MB.
Functional Roles of Pulsing in Genetic Circuits
Science. 2013 Dec 6;342(6163):1193-1200. (pdf)

Kueh HY, Champhekar A, Nutt SL, Elowitz MB, Rothenberg EV.
Positive Feedback Between PU.1 and the Cell Cycle Controls Myeloid Differentiation
Science. 2013 Aug 9;341(6146):670-673. (pdf)

Young JW, Locke JCW, Elowitz MB.
Rate of environmental change determines stress response specificity
P Natl Acad Sci USA. 2013 Mar 5;110(10):4140-4145. (pdf)

Levine JH, Fontes ME, Dworkin J, Elowitz MB.
Pulsed Feedback Defers Cellular Differentiation
PLOS Biol. 2012;10(1):e1001252. (pdf)

Young JW, Locke JCW, Altinok A, Rosenfeld N, Bacarian T, Swain S, Mjolsness E, Elowitz MB.
Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy
Nat Protoc. 2012;7(1):80-88. (pdf, movie)

Rosenthal AZ, Elowitz MB.
Following evolution of bacterial antibiotic resistance in real time
Nat Genet. 2012 Jan;44(1):11-13. (pdf)

Locke JCW, Young JW, Fontes M, Jiménez MJH, Elowitz MB.
Stochastic Pulse Regulation in Bacterial Stress Response
Science. 2011 Oct 21;334(6054):366-369. (pdf)

Nandagopal N, Elowitz MB.
Synthetic Biology: Integrated Gene Circuits
Science. 2011 Sep 2;333(6047):1244-1248. (pdf)

Sprinzak D, Lakhanpal A, LeBon L, Garcia-Ojalvo J, Elowitz MB.
Mutual Inactivation of Notch Receptors and Ligands Facilitates Developmental Patterning
PLOS Comput Biol. 2011 Jun 9;7(6):e1002069. (pdf)

Young JW, Elowitz MB.
Mixed Messages: How Bacteria Resolve Conflicting Signals
Mol Cell. 2011 May 20;42(4):405-406. (pdf)

Elowitz MB, Lim WA.
Build life to understand it
Nature. 2010 Dec;468(7326):889-890. (pdf)

Acar M, Pando BF, Arnold FH, Elowitz MB, van Oudenaarden A.
A General Mechanism for Network-Dosage Compensation in Gene Circuits
Science. 2010 Sep;329(5999):1656-1660. (pdf)
Supplementary (pdf)

Eldar A, Elowitz MB.
Functional roles for noise in genetic circuits
Nature. 2010 Sep;467(7312):167-173. (pdf)

Cox RS III, Dunlop MJ, Elowitz MB.
A synthetic three-color scaffold for monitoring genetic regulation and noise
J Biol Eng. 2010;4(10). (pdf)

Lakhanpal A, Sprinzak D, Elowitz MB.
Mutual inactivation of Notch and Delta permits a simple mechanism for lateral inhibition patterning
q-bio.MN. 2010. (pdf)

Sprinzak D, Lakhanpal A, LeBon L, Santat LA, Fontes ME, Anderson GA, Garcia-Ojalvo J, Elowitz MB.
Cis-interactions between Notch and Delta generate mutually exclusive signalling states
Nature. 2010 May;465(7294):86-90. (pdf)
Supplementary (pdf), Movies (avi1, avi2, avi3)

Çagatay T, Turcotte M, Elowitz MB, Garcia-Ojalvo J, Süel GM.
Architecture-Dependent Noise Discriminates Functionally Analogous Differentiation Circuits
Cell. 2009 Oct;139:1-11. (pdf)
Supplementary (pdf)

Eldar A, Chary V, Xenopoulos P, Fontes ME, Loson OC, Dworkin J, Piggot P, Elowitz MB.
Partial penetrance facilitates developmental evolution in bacteria
Nature. 2009 Jul;460(7254):510-514. (pdf)

Locke JCW, Elowitz MB.
Using movies to analyse gene circuit dynamics in single cells
Nat Rev Microbiol. 2009 May;7(5):383-392. (pdf)

Dunlop MJ, Cox RS III, Levine JH, Murray RM, Elowitz MB.
Regulatory activity revealed by dynamic correlations in gene expression noise
Nat Genet. 2008;40:1493-1498. (pdf)
Supplementary (pdf), Movies (avi1, avi2)

Cai L, Dalal CK, Elowitz MB.
Frequency-modulated nuclear localization bursts coordinate gene regulation
Nature. 2008 Sep 25;455(7212):485-490. (pdf)
Supplementary (pdf), Movie (avi)

Presser A, Elowitz MB, Kellis M, Kishony R.
The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication
P Natl Acad Sci USA. 2008 Jan 22;105(3):950-954. (pdf)

Cox RS III, Surette MG, Elowitz MB.
Programming gene expression with combinatorial promoters
Mol Syst Biol. 2007 Nov 13;3:145. (pdf)

Rosenfeld N, Young JW, Alon U, Swain PS, Elowitz MB.
Accurate prediction of gene feedback circuit behavior from component properties
Mol Syst Biol. 2007 Nov 13;3:143. (pdf)

Süel GM, Kulkarni RP, Dworkin J, Garcia-Ojalvo J, Elowitz MB.
Tunability and Noise Dependence in Differentiation Dynamics
Science. 2007 Mar 23;315:1716-1719. (pdf)
Supplementary (pdf)

Rosenfeld N, Perkins TJ, Alon U, Elowitz MB, Swain PS.
A fluctuation method to quantify in vivo fluorescence data
Biophys J. 2006 Jul 15;91(2):759-766.

Süel G, Garcia-Ojalvo J, Liberman L, Elowitz MB.
An excitable gene regulatory circuit induces transient cellular differentiation
Nature. 2006 Mar 23;440:545-550. [Letters] (pdf)

Sprinzak D, Elowitz MB.
Reconstruction of genetic circuits
Nature. 2005 Nov 24;438(7067):443-448. [Reviews] (pdf)

Eldar A, Elowitz MB.
Systems Biology: Deviations in mating
Nature. 2005 Sep 29;437(7059):631-632. [News & Views] (pdf)

Rosenfeld N, Young JW, Alon U, Swain PS, Elowitz MB.
Gene Regulation at the Single-Cell Level
Science. 2005 Mar 25;307(5717):1962-1965. (pdf)

Garcia-Ojalvo J, Elowitz MB, Strogatz SH.
Modeling a synthetic multicellular clock: Repressilators coupled by quorum sensing
P Natl Acad Sci USA. 2004 Jul 27;101(30):10955-10960. (pdf)

Lahav G, Rosenfeld N, Sigal A, Geva-Zatorsky N, Levine AJ, Elowitz MB, Alon U.
Dynamics of the p53-Mdm2 feedback loop in individual cells
Nat Genet. 2004 Feb;36(2):147-150. (pdf)

Overholtzer M, Rao PH, Favis R, Lu XY, Elowitz MB, Barany F, Ladanyi M, Gorlick R, Levine AJ.
The presence of p53 mutations in human osteosarcomas correlates with high levels of genomic instability
P Natl Acad Sci USA. 2003 Sep 30;100(20):11547-11552.
Erratum in: P Natl Acad Sci USA. 2003 Nov 25;100(24):14511.

Rosenfeld N, Elowitz MB, Alon U.
Negative Autoregulation Speeds the Response Times of Transcription Networks
J Mol Biol. 2002 Nov 8;323(5):785-793. (pdf)

Swain PS, Elowitz MB, Siggia ED.
Intrinsic and extrinsic contributions to stochasticity in gene expression
P Natl Acad Sci USA. 2002 Oct 1;99(20):12795-12800. (pdf)

Elowitz MB, Levine AJ, Siggia ED, Swain PS.
Stochastic Gene Expression in a Single Cell
Science. 2002 Aug 16;297(5584):1183-1186. (pdf)

Guet CC, Elowitz MB, Hsing W, Leibler S.
Combinatorial Synthesis of Genetic Networks
Science. 2002 May 24;296(5572):1466-1470. (pdf)

Elowitz MB, Leibler S.
A synthetic oscillatory network of transcriptional regulators
Nature. 2000 Jan 20;403(6767):335-338. (pdf)

Elowitz MB, Surette MG, Wolf PE, Stock JB, Leibler S.
Protein Mobility in the Cytoplasm of Escherichia coli
J Bacteriol. 1999 Jan;181(1):197-203. (pdf)

Surrey T, Elowitz MB, Wolf PE, Yang F, Nedelec F, Shokat K, Leibler S.
Chromophore-assisted light inactivation and self-organization of microtubules and motors
P Natl Acad Sci USA. 1998 Apr 14;95(8):4293-4298. (pdf)

Elowitz MB, Surette MG, Wolf PE, Stock J, Leibler S.
Photoactivation turns green fluorescent protein red
Curr Biol. 1997 Oct 1;7(10):809-812. (pdf)

Bourdieu L, Duke T, Elowitz MB, Winkelmann DA, Leibler S, Libchaber A.
Spiral Defects in Motility Assays: A Measure of Motor Protein Force
Phys Rev Lett. 1995;75(1):176-179.

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