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Items: 1 to 50 of 162

1.

Concerted 2-5A-Mediated mRNA Decay and Transcription Reprogram Protein Synthesis in the dsRNA Response.

Rath S, Prangley E, Donovan J, Demarest K, Wingreen NS, Meir Y, Korennykh A.

Mol Cell. 2019 Sep 19;75(6):1218-1228.e6. doi: 10.1016/j.molcel.2019.07.027. Epub 2019 Sep 4.

PMID:
31494033
2.

Spatial ecology of territorial populations.

Weiner BG, Posfai A, Wingreen NS.

Proc Natl Acad Sci U S A. 2019 Sep 3;116(36):17874-17879. doi: 10.1073/pnas.1911570116. Epub 2019 Aug 21.

3.

Revealing evolutionary constraints on proteins through sequence analysis.

Wang SW, Bitbol AF, Wingreen NS.

PLoS Comput Biol. 2019 Apr 24;15(4):e1007010. doi: 10.1371/journal.pcbi.1007010. eCollection 2019 Apr.

4.

Verticalization of bacterial biofilms.

Beroz F, Yan J, Sabass B, Stone HA, Bassler BL, Wingreen NS, Meir Y.

Nat Phys. 2018 Sep;14(9):954-960. doi: 10.1038/s41567-018-0170-4. Epub 2018 Jun 18.

5.

Regulation of T cell expansion by antigen presentation dynamics.

Mayer A, Zhang Y, Perelson AS, Wingreen NS.

Proc Natl Acad Sci U S A. 2019 Mar 26;116(13):5914-5919. doi: 10.1073/pnas.1812800116. Epub 2019 Mar 8.

6.

Liquid Nuclear Condensates Mechanically Sense and Restructure the Genome.

Shin Y, Chang YC, Lee DSW, Berry J, Sanders DW, Ronceray P, Wingreen NS, Haataja M, Brangwynne CP.

Cell. 2019 Mar 7;176(6):1518. doi: 10.1016/j.cell.2019.02.025. No abstract available.

PMID:
30849377
7.

Mechanical instability and interfacial energy drive biofilm morphogenesis.

Yan J, Fei C, Mao S, Moreau A, Wingreen NS, Košmrlj A, Stone HA, Bassler BL.

Elife. 2019 Mar 8;8. pii: e43920. doi: 10.7554/eLife.43920.

8.

Cell geometry and leaflet bilayer asymmetry regulate domain formation in plasma membranes.

Ali MZ, Huang KC, Wingreen NS, Mukhopadhyay R.

Phys Rev E. 2019 Jan;99(1-1):012401. doi: 10.1103/PhysRevE.99.012401.

9.

Bacterial Biofilm Material Properties Enable Removal and Transfer by Capillary Peeling.

Yan J, Moreau A, Khodaparast S, Perazzo A, Feng J, Fei C, Mao S, Mukherjee S, Košmrlj A, Wingreen NS, Bassler BL, Stone HA.

Adv Mater. 2019 Jan;31(4):e1807586. doi: 10.1002/adma.201807586. No abstract available.

PMID:
30667139
10.

Real-time 2-5A kinetics suggest that interferons β and λ evade global arrest of translation by RNase L.

Chitrakar A, Rath S, Donovan J, Demarest K, Li Y, Sridhar RR, Weiss SR, Kotenko SV, Wingreen NS, Korennykh A.

Proc Natl Acad Sci U S A. 2019 Feb 5;116(6):2103-2111. doi: 10.1073/pnas.1818363116. Epub 2019 Jan 17.

11.

Quorum sensing controls Vibrio cholerae multicellular aggregate formation.

Jemielita M, Wingreen NS, Bassler BL.

Elife. 2018 Dec 24;7. pii: e42057. doi: 10.7554/eLife.42057.

12.

Liquid Nuclear Condensates Mechanically Sense and Restructure the Genome.

Shin Y, Chang YC, Lee DSW, Berry J, Sanders DW, Ronceray P, Wingreen NS, Haataja M, Brangwynne CP.

Cell. 2018 Nov 29;175(6):1481-1491.e13. doi: 10.1016/j.cell.2018.10.057. Erratum in: Cell. 2019 Mar 7;176(6):1518.

PMID:
30500535
13.

Bacterial Biofilm Material Properties Enable Removal and Transfer by Capillary Peeling.

Yan J, Moreau A, Khodaparast S, Perazzo A, Feng J, Fei C, Mao S, Mukherjee S, Košmrlj A, Wingreen NS, Bassler BL, Stone HA.

Adv Mater. 2018 Nov;30(46):e1804153. doi: 10.1002/adma.201804153. Epub 2018 Oct 8. Erratum in: Adv Mater. 2019 Jan;31(4):e1807586.

PMID:
30368924
14.

Escherichia coli translation strategies differ across carbon, nitrogen and phosphorus limitation conditions.

Li SH, Li Z, Park JO, King CG, Rabinowitz JD, Wingreen NS, Gitai Z.

Nat Microbiol. 2018 Aug;3(8):939-947. doi: 10.1038/s41564-018-0199-2. Epub 2018 Jul 23.

15.

Hidden long evolutionary memory in a model biochemical network.

Ali MZ, Wingreen NS, Mukhopadhyay R.

Phys Rev E. 2018 Apr;97(4-1):040401. doi: 10.1103/PhysRevE.97.040401.

16.

Modeling evolution of crosstalk in noisy signal transduction networks.

Tareen A, Wingreen NS, Mukhopadhyay R.

Phys Rev E. 2018 Feb;97(2-1):020402. doi: 10.1103/PhysRevE.97.020402.

17.

The Eukaryotic CO2-Concentrating Organelle Is Liquid-like and Exhibits Dynamic Reorganization.

Freeman Rosenzweig ES, Xu B, Kuhn Cuellar L, Martinez-Sanchez A, Schaffer M, Strauss M, Cartwright HN, Ronceray P, Plitzko JM, Förster F, Wingreen NS, Engel BD, Mackinder LCM, Jonikas MC.

Cell. 2017 Sep 21;171(1):148-162.e19. doi: 10.1016/j.cell.2017.08.008.

18.

Extracellular-matrix-mediated osmotic pressure drives Vibrio cholerae biofilm expansion and cheater exclusion.

Yan J, Nadell CD, Stone HA, Wingreen NS, Bassler BL.

Nat Commun. 2017 Aug 23;8(1):327. doi: 10.1038/s41467-017-00401-1.

19.

Mechanism of bidirectional thermotaxis in Escherichia coli.

Paulick A, Jakovljevic V, Zhang S, Erickstad M, Groisman A, Meir Y, Ryu WS, Wingreen NS, Sourjik V.

Elife. 2017 Aug 3;6. pii: e26607. doi: 10.7554/eLife.26607.

20.

Physical limits to biomechanical sensing in disordered fibre networks.

Beroz F, Jawerth LM, Münster S, Weitz DA, Broedersz CP, Wingreen NS.

Nat Commun. 2017 Jul 18;8:16096. doi: 10.1038/ncomms16096.

21.

Microbial consortia at steady supply.

Taillefumier T, Posfai A, Meir Y, Wingreen NS.

Elife. 2017 May 5;6. pii: e22644. doi: 10.7554/eLife.22644.

22.

Metabolic Trade-Offs Promote Diversity in a Model Ecosystem.

Posfai A, Taillefumier T, Wingreen NS.

Phys Rev Lett. 2017 Jan 13;118(2):028103. doi: 10.1103/PhysRevLett.118.028103. Epub 2017 Jan 12.

23.

Physical model of protein cluster positioning in growing bacteria.

Wasnik V, Wang H, Wingreen NS, Mukhopadhyay R.

New J Phys. 2017;19(10). pii: 105004. doi: 10.1088/1367-2630/aa8247. Epub 2017 Oct 11.

24.

Inferring interaction partners from protein sequences.

Bitbol AF, Dwyer RS, Colwell LJ, Wingreen NS.

Proc Natl Acad Sci U S A. 2016 Oct 25;113(43):12180-12185. Epub 2016 Sep 23.

25.

Vibrio cholerae biofilm growth program and architecture revealed by single-cell live imaging.

Yan J, Sharo AG, Stone HA, Wingreen NS, Bassler BL.

Proc Natl Acad Sci U S A. 2016 Sep 6;113(36):E5337-43. doi: 10.1073/pnas.1611494113. Epub 2016 Aug 23.

26.

Spatial organization of bacterial transcription and translation.

Castellana M, Hsin-Jung Li S, Wingreen NS.

Proc Natl Acad Sci U S A. 2016 Aug 16;113(33):9286-91. doi: 10.1073/pnas.1604995113. Epub 2016 Aug 2.

27.

Know the Single-Receptor Sensing Limit? Think Again.

Aquino G, Wingreen NS, Endres RG.

J Stat Phys. 2016;162:1353-1364. Epub 2015 Nov 23.

28.

Architectural transitions in Vibrio cholerae biofilms at single-cell resolution.

Drescher K, Dunkel J, Nadell CD, van Teeffelen S, Grnja I, Wingreen NS, Stone HA, Bassler BL.

Proc Natl Acad Sci U S A. 2016 Apr 5;113(14):E2066-72. doi: 10.1073/pnas.1601702113. Epub 2016 Mar 1.

29.

Diet-induced extinctions in the gut microbiota compound over generations.

Sonnenburg ED, Smits SA, Tikhonov M, Higginbottom SK, Wingreen NS, Sonnenburg JL.

Nature. 2016 Jan 14;529(7585):212-5. doi: 10.1038/nature16504.

30.

Physics of Intracellular Organization in Bacteria.

Wingreen NS, Huang KC.

Annu Rev Microbiol. 2015;69:361-79. doi: 10.1146/annurev-micro-091014-104313. Review.

PMID:
26488278
31.

Established Microbial Colonies Can Survive Type VI Secretion Assault.

Borenstein DB, Ringel P, Basler M, Wingreen NS.

PLoS Comput Biol. 2015 Oct 20;11(10):e1004520. doi: 10.1371/journal.pcbi.1004520. eCollection 2015 Oct.

32.

Comprehensive analysis reveals how single nucleotides contribute to noncoding RNA function in bacterial quorum sensing.

Rutherford ST, Valastyan JS, Taillefumier T, Wingreen NS, Bassler BL.

Proc Natl Acad Sci U S A. 2015 Nov 3;112(44):E6038-47. doi: 10.1073/pnas.1518958112. Epub 2015 Oct 19.

33.

The mechanical world of bacteria.

Persat A, Nadell CD, Kim MK, Ingremeau F, Siryaporn A, Drescher K, Wingreen NS, Bassler BL, Gitai Z, Stone HA.

Cell. 2015 May 21;161(5):988-997. doi: 10.1016/j.cell.2015.05.005. Review.

34.

Optimal census by quorum sensing.

Taillefumier T, Wingreen NS.

PLoS Comput Biol. 2015 May 12;11(5):e1004238. doi: 10.1371/journal.pcbi.1004238. eCollection 2015 May.

35.

Fundamental constraints on the abundances of chemotaxis proteins.

Bitbol AF, Wingreen NS.

Biophys J. 2015 Mar 10;108(5):1293-305. doi: 10.1016/j.bpj.2015.01.024.

36.

Modeling curvature-dependent subcellular localization of the small sporulation protein SpoVM in Bacillus subtilis.

Wasnik V, Wingreen NS, Mukhopadhyay R.

PLoS One. 2015 Jan 27;10(1):e0111971. doi: 10.1371/journal.pone.0111971. eCollection 2015.

37.

Extracellular matrix structure governs invasion resistance in bacterial biofilms.

Nadell CD, Drescher K, Wingreen NS, Bassler BL.

ISME J. 2015 Aug;9(8):1700-9. doi: 10.1038/ismej.2014.246. Epub 2015 Jan 20.

38.

A qrr noncoding RNA deploys four different regulatory mechanisms to optimize quorum-sensing dynamics.

Feng L, Rutherford ST, Papenfort K, Bagert JD, van Kessel JC, Tirrell DA, Wingreen NS, Bassler BL.

Cell. 2015 Jan 15;160(1-2):228-40. doi: 10.1016/j.cell.2014.11.051. Epub 2015 Jan 8.

39.

The role of membrane-mediated interactions in the assembly and architecture of chemoreceptor lattices.

Haselwandter CA, Wingreen NS.

PLoS Comput Biol. 2014 Dec 11;10(12):e1003932. doi: 10.1371/journal.pcbi.1003932. eCollection 2014 Dec.

40.

Working together at the interface of physics and biology.

Bassler BL, Wingreen NS.

Phys Biol. 2014 Oct 8;11(5):053010. doi: 10.1088/1478-3975/11/5/053010.

PMID:
25294092
41.

Enzyme clustering accelerates processing of intermediates through metabolic channeling.

Castellana M, Wilson MZ, Xu Y, Joshi P, Cristea IM, Rabinowitz JD, Gitai Z, Wingreen NS.

Nat Biotechnol. 2014 Oct;32(10):1011-8. doi: 10.1038/nbt.3018. Epub 2014 Sep 28.

42.

Large-scale filament formation inhibits the activity of CTP synthetase.

Barry RM, Bitbol AF, Lorestani A, Charles EJ, Habrian CH, Hansen JM, Li HJ, Baldwin EP, Wingreen NS, Kollman JM, Gitai Z.

Elife. 2014 Jul 16;3:e03638. doi: 10.7554/eLife.03638.

43.

Interpreting 16S metagenomic data without clustering to achieve sub-OTU resolution.

Tikhonov M, Leach RW, Wingreen NS.

ISME J. 2015 Jan;9(1):68-80. doi: 10.1038/ismej.2014.117. Epub 2014 Jul 11.

44.

Condensation and localization of the partitioning protein ParB on the bacterial chromosome.

Broedersz CP, Wang X, Meir Y, Loparo JJ, Rudner DZ, Wingreen NS.

Proc Natl Acad Sci U S A. 2014 Jun 17;111(24):8809-14. doi: 10.1073/pnas.1402529111. Epub 2014 Jun 3.

45.

Imprecision of adaptation in Escherichia coli chemotaxis.

Neumann S, Vladimirov N, Krembel AK, Wingreen NS, Sourjik V.

PLoS One. 2014 Jan 8;9(1):e84904. doi: 10.1371/journal.pone.0084904. eCollection 2014.

46.

Solutions to the public goods dilemma in bacterial biofilms.

Drescher K, Nadell CD, Stone HA, Wingreen NS, Bassler BL.

Curr Biol. 2014 Jan 6;24(1):50-55. doi: 10.1016/j.cub.2013.10.030. Epub 2013 Dec 12.

47.

Predicting functionally informative mutations in Escherichia coli BamA using evolutionary covariance analysis.

Dwyer RS, Ricci DP, Colwell LJ, Silhavy TJ, Wingreen NS.

Genetics. 2013 Oct;195(2):443-55. doi: 10.1534/genetics.113.155861. Epub 2013 Aug 9.

48.

Chemical sensing by nonequilibrium cooperative receptors.

Skoge M, Naqvi S, Meir Y, Wingreen NS.

Phys Rev Lett. 2013 Jun 14;110(24):248102. Epub 2013 Jun 11.

49.

Non-local interaction via diffusible resource prevents coexistence of cooperators and cheaters in a lattice model.

Borenstein DB, Meir Y, Shaevitz JW, Wingreen NS.

PLoS One. 2013 May 17;8(5):e63304. doi: 10.1371/journal.pone.0063304. Print 2013.

50.

Cell shape can mediate the spatial organization of the bacterial cytoskeleton.

Wang S, Wingreen NS.

Biophys J. 2013 Feb 5;104(3):541-52. doi: 10.1016/j.bpj.2012.12.027.

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