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Items: 1 to 50 of 121

1.

Stochastic Turing patterns in a synthetic bacterial population.

Karig D, Martini KM, Lu T, DeLateur NA, Goldenfeld N, Weiss R.

Proc Natl Acad Sci U S A. 2018 Jun 26;115(26):6572-6577. doi: 10.1073/pnas.1720770115. Epub 2018 Jun 11.

PMID:
29891706
2.

Biophysical constraints determine the selection of phenotypic fluctuations during directed evolution.

Shih HY, Mickalide H, Fraebel DT, Goldenfeld N, Kuehn S.

Phys Biol. 2018 Jul 27;15(6):065003. doi: 10.1088/1478-3975/aac4e6.

PMID:
29762139
3.

Automated monitoring of behavior reveals bursty interaction patterns and rapid spreading dynamics in honeybee social networks.

Gernat T, Rao VD, Middendorf M, Dankowicz H, Goldenfeld N, Robinson GE.

Proc Natl Acad Sci U S A. 2018 Feb 13;115(7):1433-1438. doi: 10.1073/pnas.1713568115. Epub 2018 Jan 29.

4.

Coevolution Maintains Diversity in the Stochastic "Kill the Winner" Model.

Xue C, Goldenfeld N.

Phys Rev Lett. 2017 Dec 29;119(26):268101. doi: 10.1103/PhysRevLett.119.268101. Epub 2017 Dec 28.

PMID:
29328693
5.

Universal biology and the statistical mechanics of early life.

Goldenfeld N, Biancalani T, Jafarpour F.

Philos Trans A Math Phys Eng Sci. 2017 Dec 28;375(2109). pii: 20160341. doi: 10.1098/rsta.2016.0341.

PMID:
29133441
6.

Noise-induced symmetry breaking far from equilibrium and the emergence of biological homochirality.

Jafarpour F, Biancalani T, Goldenfeld N.

Phys Rev E. 2017 Mar;95(3-1):032407. doi: 10.1103/PhysRevE.95.032407. Epub 2017 Mar 10.

PMID:
28415353
7.

Giant Amplification of Noise in Fluctuation-Induced Pattern Formation.

Biancalani T, Jafarpour F, Goldenfeld N.

Phys Rev Lett. 2017 Jan 6;118(1):018101. doi: 10.1103/PhysRevLett.118.018101. Epub 2017 Jan 3.

PMID:
28106453
8.

Stochastic Predator-Prey Dynamics of Transposons in the Human Genome.

Xue C, Goldenfeld N.

Phys Rev Lett. 2016 Nov 11;117(20):208101. Epub 2016 Nov 10.

PMID:
27886494
9.

Capturing One of the Human Gut Microbiome's Most Wanted: Reconstructing the Genome of a Novel Butyrate-Producing, Clostridial Scavenger from Metagenomic Sequence Data.

Jeraldo P, Hernandez A, Nielsen HB, Chen X, White BA, Goldenfeld N, Nelson H, Alhquist D, Boardman L, Chia N.

Front Microbiol. 2016 May 26;7:783. doi: 10.3389/fmicb.2016.00783. eCollection 2016.

10.

Real-time transposable element activity in individual live cells.

Kim NH, Lee G, Sherer NA, Martini KM, Goldenfeld N, Kuhlman TE.

Proc Natl Acad Sci U S A. 2016 Jun 28;113(26):7278-83. doi: 10.1073/pnas.1601833113. Epub 2016 Jun 13.

11.

Tricritical spiral vortex instability in cross-slot flow.

Haward SJ, Poole RJ, Alves MA, Oliveira PJ, Goldenfeld N, Shen AQ.

Phys Rev E. 2016 Mar;93(3):031101. doi: 10.1103/PhysRevE.93.031101. Epub 2016 Mar 9.

PMID:
27078282
12.

Samuel Frederick Edwards: Founder of modern polymer and soft matter theory.

Goldenfeld N.

Proc Natl Acad Sci U S A. 2016 Jan 5;113(1):10-1. doi: 10.1073/pnas.1523001113. Epub 2015 Dec 23. No abstract available.

13.

Noise-Induced Mechanism for Biological Homochirality of Early Life Self-Replicators.

Jafarpour F, Biancalani T, Goldenfeld N.

Phys Rev Lett. 2015 Oct 9;115(15):158101. doi: 10.1103/PhysRevLett.115.158101. Epub 2015 Oct 8.

PMID:
26550754
14.

Framework for analyzing ecological trait-based models in multidimensional niche spaces.

Biancalani T, DeVille L, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2015 May;91(5):052107. Epub 2015 May 7. Erratum in: Phys Rev E Stat Nonlin Soft Matter Phys. 2015 Sep;92(3):039902.

PMID:
26066119
15.

Caste-specific differences in hindgut microbial communities of honey bees (Apis mellifera).

Kapheim KM, Rao VD, Yeoman CJ, Wilson BA, White BA, Goldenfeld N, Robinson GE.

PLoS One. 2015 Apr 15;10(4):e0123911. doi: 10.1371/journal.pone.0123911. eCollection 2015.

16.

Intermittent dislocation density fluctuations in crystal plasticity from a phase-field crystal model.

Tarp JM, Angheluta L, Mathiesen J, Goldenfeld N.

Phys Rev Lett. 2014 Dec 31;113(26):265503. Epub 2014 Dec 31.

PMID:
25615353
17.

Path-integral calculation for the emergence of rapid evolution from demographic stochasticity.

Shih HY, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Nov;90(5-1):050702. Epub 2014 Nov 26.

PMID:
25493725
18.

Diet and exercise orthogonally alter the gut microbiome and reveal independent associations with anxiety and cognition.

Kang SS, Jeraldo PR, Kurti A, Miller ME, Cook MD, Whitlock K, Goldenfeld N, Woods JA, White BA, Chia N, Fryer JD.

Mol Neurodegener. 2014 Sep 13;9:36. doi: 10.1186/1750-1326-9-36.

19.

Looking in the right direction: Carl Woese and evolutionary biology.

Goldenfeld N.

RNA Biol. 2014;11(3):248-53. doi: 10.4161/rna.28640. Epub 2014 Mar 25. Review.

PMID:
24667156
20.

Velocity statistics for interacting edge dislocations in one dimension from Dyson's Coulomb gas model.

Jafarpour F, Angheluta L, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Oct;88(4):042123. Epub 2013 Oct 14.

PMID:
24229132
21.

Extrinsic noise driven phenotype switching in a self-regulating gene.

Assaf M, Roberts E, Luthey-Schulten Z, Goldenfeld N.

Phys Rev Lett. 2013 Aug 2;111(5):058102. Epub 2013 Jul 30.

PMID:
23952448
22.

Universal fluctuations and extreme statistics of avalanches near the depinning transition.

LeBlanc M, Angheluta L, Dahmen K, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Feb;87(2):022126. Epub 2013 Feb 19.

PMID:
23496478
23.

Retrospective. Carl R. Woese (1928-2012).

Goldenfeld N, Pace NR.

Science. 2013 Feb 8;339(6120):661. doi: 10.1126/science.1235219. No abstract available.

PMID:
23393257
24.

Testing a missing spectral link in turbulence.

Kellay H, Tran T, Goldburg W, Goldenfeld N, Gioia G, Chakraborty P.

Phys Rev Lett. 2012 Dec 21;109(25):254502. Epub 2012 Dec 20.

PMID:
23368469
25.

Effect of weak rotation on large-scale circulation cessations in turbulent convection.

Assaf M, Angheluta L, Goldenfeld N.

Phys Rev Lett. 2012 Aug 17;109(7):074502. Epub 2012 Aug 16.

PMID:
23006374
26.

Distribution of maximum velocities in avalanches near the depinning transition.

LeBlanc M, Angheluta L, Dahmen K, Goldenfeld N.

Phys Rev Lett. 2012 Sep 7;109(10):105702. Epub 2012 Sep 4.

PMID:
23005300
27.

The microbiome of the chicken gastrointestinal tract.

Yeoman CJ, Chia N, Jeraldo P, Sipos M, Goldenfeld ND, White BA.

Anim Health Res Rev. 2012 Jun;13(1):89-99. doi: 10.1017/S1466252312000138. Review.

PMID:
22853945
28.

Quantification of the relative roles of niche and neutral processes in structuring gastrointestinal microbiomes.

Jeraldo P, Sipos M, Chia N, Brulc JM, Dhillon AS, Konkel ME, Larson CL, Nelson KE, Qu A, Schook LB, Yang F, White BA, Goldenfeld N.

Proc Natl Acad Sci U S A. 2012 Jun 19;109(25):9692-8. doi: 10.1073/pnas.1206721109. Epub 2012 May 21.

29.

Anisotropic velocity statistics of topological defects under shear flow.

Angheluta L, Jeraldo P, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Jan;85(1 Pt 1):011153. Epub 2012 Jan 31.

PMID:
22400558
30.

Phylogeny and beyond: Scientific, historical, and conceptual significance of the first tree of life.

Pace NR, Sapp J, Goldenfeld N.

Proc Natl Acad Sci U S A. 2012 Jan 24;109(4):1011-8. doi: 10.1073/pnas.1109716109. Epub 2012 Jan 17.

31.

Evolutionary constraints on visual cortex architecture from the dynamics of hallucinations.

Butler TC, Benayoun M, Wallace E, van Drongelen W, Goldenfeld N, Cowan J.

Proc Natl Acad Sci U S A. 2012 Jan 10;109(2):606-9. doi: 10.1073/pnas.1118672109. Epub 2011 Dec 27.

32.

Directed percolation describes lifetime and growth of turbulent puffs and slugs.

Sipos M, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Sep;84(3 Pt 2):035304. Epub 2011 Sep 29.

PMID:
22060447
33.

Cellulosomics, a gene-centric approach to investigating the intraspecific diversity and adaptation of Ruminococcus flavefaciens within the rumen.

Brulc JM, Yeoman CJ, Wilson MK, Berg Miller ME, Jeraldo P, Jindou S, Goldenfeld N, Flint HJ, Lamed R, Borovok I, Vodovnik M, Nelson KE, Bayer EA, White BA.

PLoS One. 2011;6(10):e25329. doi: 10.1371/journal.pone.0025329. Epub 2011 Oct 17.

34.

Theory of cooperation in a micro-organismal snowdrift game.

Wang Z, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Aug;84(2 Pt 1):020902. Epub 2011 Aug 26.

PMID:
21928942
35.

On the suitability of short reads of 16S rRNA for phylogeny-based analyses in environmental surveys.

Jeraldo P, Chia N, Goldenfeld N.

Environ Microbiol. 2011 Nov;13(11):3000-9. doi: 10.1111/j.1462-2920.2011.02577.x. Epub 2011 Sep 13.

PMID:
21910812
36.

Effect of Coulombic friction on spatial displacement statistics.

Menzel AM, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Jul;84(1 Pt 1):011122. Epub 2011 Jul 18.

PMID:
21867128
37.

Fluctuation-driven Turing patterns.

Butler T, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Jul;84(1 Pt 1):011112. Epub 2011 Jul 11.

PMID:
21867118
38.

Rare fluctuations and large-scale circulation cessations in turbulent convection.

Assaf M, Angheluta L, Goldenfeld N.

Phys Rev Lett. 2011 Jul 22;107(4):044502. Epub 2011 Jul 19.

PMID:
21867011
39.

Dislocations jam at any density.

Tsekenis G, Goldenfeld N, Dahmen KA.

Phys Rev Lett. 2011 Mar 11;106(10):105501. Epub 2011 Mar 8.

PMID:
21469802
40.

Dynamics of gene duplication and transposons in microbial genomes following a sudden environmental change.

Chia N, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Feb;83(2 Pt 1):021906. Epub 2011 Feb 16.

PMID:
21405862
41.

Spectral theory of the turbulent mean-velocity profile.

Gioia G, Guttenberg N, Goldenfeld N, Chakraborty P.

Phys Rev Lett. 2010 Oct 29;105(18):184501. Epub 2010 Oct 25.

PMID:
21231107
42.

Robust computational analysis of rRNA hypervariable tag datasets.

Sipos M, Jeraldo P, Chia N, Qu A, Dhillon AS, Konkel ME, Nelson KE, White BA, Goldenfeld N.

PLoS One. 2010 Dec 31;5(12):e15220. doi: 10.1371/journal.pone.0015220.

43.

Plasticity and dislocation dynamics in a phase field crystal model.

Chan PY, Tsekenis G, Dantzig J, Dahmen KA, Goldenfeld N.

Phys Rev Lett. 2010 Jul 2;105(1):015502. Epub 2010 Jun 28.

PMID:
20867460
44.

Fixed points and limit cycles in the population dynamics of lysogenic viruses and their hosts.

Wang Z, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Jul;82(1 Pt 1):011918. Epub 2010 Jul 22.

PMID:
20866659
45.

Emergence of foams from the breakdown of the phase field crystal model.

Guttenberg N, Goldenfeld N, Dantzig J.

Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Jun;81(6 Pt 2):065301. Epub 2010 Jun 9.

PMID:
20866468
46.

Emergence of heterogeneity and political organization in information exchange networks.

Guttenberg N, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Apr;81(4 Pt 2):046111. Epub 2010 Apr 22.

PMID:
20481790
47.

Extreme fluctuations and the finite lifetime of the turbulent state.

Goldenfeld N, Guttenberg N, Gioia G.

Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Mar;81(3 Pt 2):035304. Epub 2010 Mar 23.

PMID:
20365807
48.

Nonlinear elasticity of the phase-field crystal model from the renormalization group.

Chan PY, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Dec;80(6 Pt 2):065105. Epub 2009 Dec 30.

PMID:
20365217
49.

Optimality properties of a proposed precursor to the genetic code.

Butler T, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Sep;80(3 Pt 1):032901. Epub 2009 Sep 30.

PMID:
19905163
50.

Robust ecological pattern formation induced by demographic noise.

Butler T, Goldenfeld N.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Sep;80(3 Pt 1):030902. Epub 2009 Sep 15.

PMID:
19905053

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