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Items: 1 to 50 of 116

1.

Rock-paper-scissors: Engineered population dynamics increase genetic stability.

Liao MJ, Din MO, Tsimring L, Hasty J.

Science. 2019 Sep 6;365(6457):1045-1049. doi: 10.1126/science.aaw0542.

PMID:
31488693
2.

Divergent Aging of Isogenic Yeast Cells Revealed through Single-Cell Phenotypic Dynamics.

Jin M, Li Y, O'Laughlin R, Bittihn P, Pillus L, Tsimring LS, Hasty J, Hao N.

Cell Syst. 2019 Mar 27;8(3):242-253.e3. doi: 10.1016/j.cels.2019.02.002. Epub 2019 Mar 6.

PMID:
30852250
3.

Flavin-based metabolic cycles are integral features of growth and division in single yeast cells.

Baumgartner BL, O'Laughlin R, Jin M, Tsimring LS, Hao N, Hasty J.

Sci Rep. 2018 Dec 21;8(1):18045. doi: 10.1038/s41598-018-35936-w.

4.

Microfluidics-Based Analysis of Contact-dependent Bacterial Interactions.

Cooper R, Tsimring L, Hasty J.

Bio Protoc. 2018 Aug 20;8(16). pii: e2970. doi: 10.21769/BioProtoc.2970.

5.

Coexistence and Pattern Formation in Bacterial Mixtures with Contact-Dependent Killing.

Xiong L, Cooper R, Tsimring LS.

Biophys J. 2018 Apr 10;114(7):1741-1750. doi: 10.1016/j.bpj.2018.02.012.

6.

Rational engineering of synthetic microbial systems: from single cells to consortia.

Bittihn P, Din MO, Tsimring LS, Hasty J.

Curr Opin Microbiol. 2018 Oct;45:92-99. doi: 10.1016/j.mib.2018.02.009. Epub 2018 Mar 22. Review.

PMID:
29574330
7.

Inter-species population dynamics enhance microbial horizontal gene transfer and spread of antibiotic resistance.

Cooper RM, Tsimring L, Hasty J.

Elife. 2017 Nov 1;6. pii: e25950. doi: 10.7554/eLife.25950.

8.

Multigenerational silencing dynamics control cell aging.

Li Y, Jin M, O'Laughlin R, Bittihn P, Tsimring LS, Pillus L, Hasty J, Hao N.

Proc Natl Acad Sci U S A. 2017 Oct 17;114(42):11253-11258. doi: 10.1073/pnas.1703379114. Epub 2017 Oct 3.

9.

Gene Conversion Facilitates Adaptive Evolution on Rugged Fitness Landscapes.

Bittihn P, Tsimring LS.

Genetics. 2017 Dec;207(4):1577-1589. doi: 10.1534/genetics.117.300350. Epub 2017 Oct 4.

10.

Rapid and Scalable Preparation of Bacterial Lysates for Cell-Free Gene Expression.

Didovyk A, Tonooka T, Tsimring L, Hasty J.

ACS Synth Biol. 2017 Dec 15;6(12):2198-2208. doi: 10.1021/acssynbio.7b00253. Epub 2017 Aug 21.

11.

Coupled feedback loops control the stimulus-dependent dynamics of the yeast transcription factor Msn2.

Jiang Y, AkhavanAghdam Z, Tsimring LS, Hao N.

J Biol Chem. 2017 Jul 28;292(30):12366-12372. doi: 10.1074/jbc.C117.800896. Epub 2017 Jun 21.

12.

A stabilized microbial ecosystem of self-limiting bacteria using synthetic quorum-regulated lysis.

Scott SR, Din MO, Bittihn P, Xiong L, Tsimring LS, Hasty J.

Nat Microbiol. 2017 Jun 12;2:17083. doi: 10.1038/nmicrobiol.2017.83.

13.

Synthetic Gene Circuits Learn to Classify.

Didovyk A, Tsimring LS.

Cell Syst. 2017 Feb 22;4(2):151-153. doi: 10.1016/j.cels.2017.02.001.

14.

Suppression of Beneficial Mutations in Dynamic Microbial Populations.

Bittihn P, Hasty J, Tsimring LS.

Phys Rev Lett. 2017 Jan 13;118(2):028102. doi: 10.1103/PhysRevLett.118.028102. Epub 2017 Jan 12.

15.

Species-Independent Attraction to Biofilms through Electrical Signaling.

Humphries J, Xiong L, Liu J, Prindle A, Yuan F, Arjes HA, Tsimring L, Süel GM.

Cell. 2017 Jan 12;168(1-2):200-209.e12. doi: 10.1016/j.cell.2016.12.014. Epub 2017 Jan 12.

16.

Criticality and Adaptivity in Enzymatic Networks.

Steiner PJ, Williams RJ, Hasty J, Tsimring LS.

Biophys J. 2016 Sep 6;111(5):1078-87. doi: 10.1016/j.bpj.2016.07.036.

17.

Correction: Turing Patterning Using Gene Circuits with Gas-Induced Degradation of Quorum Sensing Molecules.

Borek B, Hasty J, Tsimring L.

PLoS One. 2016 Jul 28;11(7):e0160272. doi: 10.1371/journal.pone.0160272. eCollection 2016.

18.

Synchronized cycles of bacterial lysis for in vivo delivery.

Din MO, Danino T, Prindle A, Skalak M, Selimkhanov J, Allen K, Julio E, Atolia E, Tsimring LS, Bhatia SN, Hasty J.

Nature. 2016 Aug 4;536(7614):81-85. doi: 10.1038/nature18930. Epub 2016 Jul 20.

19.

Transcriptional regulation with CRISPR-Cas9: principles, advances, and applications.

Didovyk A, Borek B, Tsimring L, Hasty J.

Curr Opin Biotechnol. 2016 Aug;40:177-184. doi: 10.1016/j.copbio.2016.06.003. Epub 2016 Jun 23. Review.

20.

Turing Patterning Using Gene Circuits with Gas-Induced Degradation of Quorum Sensing Molecules.

Borek B, Hasty J, Tsimring L.

PLoS One. 2016 May 5;11(5):e0153679. doi: 10.1371/journal.pone.0153679. eCollection 2016. Erratum in: PLoS One. 2016;11(7):e0160272.

21.

Spatiotemporal dynamics of distributed synthetic genetic circuits.

Kanakov O, Laptyeva T, Tsimring L, Ivanchenko M.

Physica D. 2016 Apr 1;318-319:116-123.

22.

Orthogonal Modular Gene Repression in Escherichia coli Using Engineered CRISPR/Cas9.

Didovyk A, Borek B, Hasty J, Tsimring L.

ACS Synth Biol. 2016 Jan 15;5(1):81-8. doi: 10.1021/acssynbio.5b00147. Epub 2015 Sep 30.

23.

Self-reproducing catalyst drives repeated phospholipid synthesis and membrane growth.

Hardy MD, Yang J, Selimkhanov J, Cole CM, Tsimring LS, Devaraj NK.

Proc Natl Acad Sci U S A. 2015 Jul 7;112(27):8187-92. doi: 10.1073/pnas.1506704112. Epub 2015 Jun 22.

24.

Multi-input distributed classifiers for synthetic genetic circuits.

Kanakov O, Kotelnikov R, Alsaedi A, Tsimring L, Huerta R, Zaikin A, Ivanchenko M.

PLoS One. 2015 May 6;10(5):e0125144. doi: 10.1371/journal.pone.0125144. eCollection 2015.

25.

Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing.

Davis-Turak JC, Allison K, Shokhirev MN, Ponomarenko P, Tsimring LS, Glass CK, Johnson TL, Hoffmann A.

Nucleic Acids Res. 2015 Jan;43(2):699-707. doi: 10.1093/nar/gku1338. Epub 2014 Dec 24.

26.

Systems biology. Accurate information transmission through dynamic biochemical signaling networks.

Selimkhanov J, Taylor B, Yao J, Pilko A, Albeck J, Hoffmann A, Tsimring L, Wollman R.

Science. 2014 Dec 12;346(6215):1370-3. doi: 10.1126/science.1254933.

27.

Distributed classifier based on genetically engineered bacterial cell cultures.

Didovyk A, Kanakov OI, Ivanchenko MV, Hasty J, Huerta R, Tsimring L.

ACS Synth Biol. 2015 Jan 16;4(1):72-82. doi: 10.1021/sb500235p. Epub 2014 Nov 11.

28.

Synchronization of degrade-and-fire oscillations via a common activator.

Mather W, Hasty J, Tsimring LS.

Phys Rev Lett. 2014 Sep 19;113(12):128102. Epub 2014 Sep 16.

29.

Rapid and tunable post-translational coupling of genetic circuits.

Prindle A, Selimkhanov J, Li H, Razinkov I, Tsimring LS, Hasty J.

Nature. 2014 Apr 17;508(7496):387-91. doi: 10.1038/nature13238. Epub 2014 Apr 9.

30.

Noise in biology.

Tsimring LS.

Rep Prog Phys. 2014;77(2):026601. doi: 10.1088/0034-4885/77/2/026601. Epub 2014 Jan 20. Review.

31.

Measuring competitive fitness in dynamic environments.

Razinkov IA, Baumgartner BL, Bennett MR, Tsimring LS, Hasty J.

J Phys Chem B. 2013 Oct 24;117(42):13175-81. doi: 10.1021/jp403162v. Epub 2013 Aug 7.

32.

Dual delayed feedback provides sensitivity and robustness to the NF-κB signaling module.

Longo DM, Selimkhanov J, Kearns JD, Hasty J, Hoffmann A, Tsimring LS.

PLoS Comput Biol. 2013;9(6):e1003112. doi: 10.1371/journal.pcbi.1003112. Epub 2013 Jun 27.

33.

Translational cross talk in gene networks.

Mather WH, Hasty J, Tsimring LS, Williams RJ.

Biophys J. 2013 Jun 4;104(11):2564-72. doi: 10.1016/j.bpj.2013.04.049.

34.

Continuum modeling of clustering of myxobacteria.

Harvey CW, Alber M, Tsimring LS, Aranson IS.

New J Phys. 2013 Mar;15. pii: 035029.

35.

Typical trajectories of coupled degrade-and-fire oscillators: from dispersed populations to massive clustering.

Fernandez B, Tsimring LS.

J Math Biol. 2014 Jun;68(7):1627-52. doi: 10.1007/s00285-013-0680-8. Epub 2013 May 3.

36.

Vacuum-assisted cell loading enables shear-free mammalian microfluidic culture.

Kolnik M, Tsimring LS, Hasty J.

Lab Chip. 2012 Nov 21;12(22):4732-7. doi: 10.1039/c2lc40569e.

37.

Fast stochastic algorithm for simulating evolutionary population dynamics.

Mather WH, Hasty J, Tsimring LS.

Bioinformatics. 2012 May 1;28(9):1230-8. doi: 10.1093/bioinformatics/bts130. Epub 2012 Mar 21.

38.

Queueing up for enzymatic processing: correlated signaling through coupled degradation.

Cookson NA, Mather WH, Danino T, Mondragón-Palomino O, Williams RJ, Tsimring LS, Hasty J.

Mol Syst Biol. 2011 Dec 20;7:561. doi: 10.1038/msb.2011.94.

39.

Corepressive interaction and clustering of degrade-and-fire oscillators.

Fernandez B, Tsimring LS.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Nov;84(5 Pt 1):051916. Epub 2011 Nov 22. Erratum in: Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Oct;90(4):049901.

40.

A sensing array of radically coupled genetic 'biopixels'.

Prindle A, Samayoa P, Razinkov I, Danino T, Tsimring LS, Hasty J.

Nature. 2011 Dec 18;481(7379):39-44. doi: 10.1038/nature10722.

41.

Antagonistic gene transcripts regulate adaptation to new growth environments.

Baumgartner BL, Bennett MR, Ferry M, Johnson TL, Tsimring LS, Hasty J.

Proc Natl Acad Sci U S A. 2011 Dec 27;108(52):21087-92. doi: 10.1073/pnas.1111408109. Epub 2011 Dec 12.

42.

Recent advances in single-cell studies of gene regulation.

Selimkhanov J, Hasty J, Tsimring LS.

Curr Opin Biotechnol. 2012 Feb;23(1):34-40. doi: 10.1016/j.copbio.2011.11.006. Epub 2011 Dec 6. Review.

43.
44.

Entrainment of a population of synthetic genetic oscillators.

Mondragón-Palomino O, Danino T, Selimkhanov J, Tsimring L, Hasty J.

Science. 2011 Sep 2;333(6047):1315-1319. doi: 10.1126/science.1205369.

45.

In-silico patterning of vascular mesenchymal cells in three dimensions.

Danino T, Volfson D, Bhatia SN, Tsimring L, Hasty J.

PLoS One. 2011;6(5):e20182. doi: 10.1371/journal.pone.0020182. Epub 2011 May 25.

46.

Buckling instability in ordered bacterial colonies.

Boyer D, Mather W, Mondragón-Palomino O, Orozco-Fuentes S, Danino T, Hasty J, Tsimring LS.

Phys Biol. 2011 Apr;8(2):026008. doi: 10.1088/1478-3975/8/2/026008. Epub 2011 Mar 1.

47.

Correlation resonance generated by coupled enzymatic processing.

Mather WH, Cookson NA, Hasty J, Tsimring LS, Williams RJ.

Biophys J. 2010 Nov 17;99(10):3172-81. doi: 10.1016/j.bpj.2010.09.057.

48.

Streaming instability in growing cell populations.

Mather W, Mondragón-Palomino O, Danino T, Hasty J, Tsimring LS.

Phys Rev Lett. 2010 May 21;104(20):208101. Epub 2010 May 19.

49.

A synchronized quorum of genetic clocks.

Danino T, Mondragón-Palomino O, Tsimring L, Hasty J.

Nature. 2010 Jan 21;463(7279):326-30. doi: 10.1038/nature08753.

50.

Cell cycle-dependent variations in protein concentration.

Cookson NA, Cookson SW, Tsimring LS, Hasty J.

Nucleic Acids Res. 2010 May;38(8):2676-81. doi: 10.1093/nar/gkp1069. Epub 2009 Dec 17.

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