Ned S. Wingreen - Publications

Affiliations: 
Molecular Biology Princeton University, Princeton, NJ 
Area:
Biological modeling; intracellular networks; molecular biophysics
Website:
http://molbio.princeton.edu/faculty/molbio-faculty/91-wingreen

188 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any innacuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Mayer A, Zhang Y, Perelson AS, Wingreen NS. Regulation of T cell expansion by antigen presentation dynamics. Proceedings of the National Academy of Sciences of the United States of America. PMID 30850527 DOI: 10.1073/pnas.1812800116  0.44
2019 Shin Y, Chang YC, Lee DSW, Berry J, Sanders DW, Ronceray P, Wingreen NS, Haataja M, Brangwynne CP. Liquid Nuclear Condensates Mechanically Sense and Restructure the Genome. Cell. 176: 1518. PMID 30849377 DOI: 10.1016/j.cell.2019.02.025  0.32
2019 Yan J, Fei C, Mao S, Moreau A, Wingreen NS, Košmrlj A, Stone HA, Bassler BL. Mechanical instability and interfacial energy drive biofilm morphogenesis. Elife. 8. PMID 30848725 DOI: 10.7554/eLife.43920  0.92
2019 Ali MZ, Huang KC, Wingreen NS, Mukhopadhyay R. Cell geometry and leaflet bilayer asymmetry regulate domain formation in plasma membranes. Physical Review. E. 99: 012401. PMID 30780246 DOI: 10.1103/PhysRevE.99.012401  0.96
2019 Yan J, Moreau A, Khodaparast S, Perazzo A, Feng J, Fei C, Mao S, Mukherjee S, Košmrlj A, Wingreen NS, Bassler BL, Stone HA. Bacterial Biofilm Material Properties Enable Removal and Transfer by Capillary Peeling. Advanced Materials (Deerfield Beach, Fla.). 31: e1807586. PMID 30667139 DOI: 10.1002/adma.201807586  0.92
2018 Beroz F, Yan J, Sabass B, Stone HA, Bassler BL, Wingreen NS, Meir Y. Verticalization of bacterial biofilms. Nature Physics. 14: 954-960. PMID 30906420 DOI: 10.1038/s41567-018-0170-4  0.92
2018 Jemielita M, Wingreen NS, Bassler BL. Quorum sensing controls multicellular aggregate formation. Elife. 7. PMID 30582742 DOI: 10.7554/eLife.42057  0.92
2018 Shin Y, Chang YC, Lee DSW, Berry J, Sanders DW, Ronceray P, Wingreen NS, Haataja M, Brangwynne CP. Liquid Nuclear Condensates Mechanically Sense and Restructure the Genome. Cell. 175: 1481-1491.e13. PMID 30500535 DOI: 10.1016/j.cell.2018.10.057  0.32
2018 Yan J, Moreau A, Khodaparast S, Perazzo A, Feng J, Fei C, Mao S, Mukherjee S, Košmrlj A, Wingreen NS, Bassler BL, Stone HA. Bacterial Biofilm Material Properties Enable Removal and Transfer by Capillary Peeling. Advanced Materials (Deerfield Beach, Fla.). e1804153. PMID 30368924 DOI: 10.1002/adma.201804153  0.92
2018 Li SH, Li Z, Park JO, King CG, Rabinowitz JD, Wingreen NS, Gitai Z. Escherichia coli translation strategies differ across carbon, nitrogen and phosphorus limitation conditions. Nature Microbiology. PMID 30038306 DOI: 10.1038/s41564-018-0199-2  0.64
2018 Ali MZ, Wingreen NS, Mukhopadhyay R. Hidden long evolutionary memory in a model biochemical network. Physical Review. E. 97: 040401. PMID 29758653 DOI: 10.1103/PhysRevE.97.040401  0.64
2018 Tareen A, Wingreen NS, Mukhopadhyay R. Modeling evolution of crosstalk in noisy signal transduction networks. Physical Review. E. 97: 020402. PMID 29548149 DOI: 10.1103/PhysRevE.97.020402  0.64
2017 Wasnik V, Wang H, Wingreen NS, Mukhopadhyay R. Physical model of protein cluster positioning in growing bacteria. New Journal of Physics. 19. PMID 29628783 DOI: 10.1088/1367-2630/aa8247  0.64
2017 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. The Eukaryotic CO2-Concentrating Organelle Is Liquid-like and Exhibits Dynamic Reorganization. Cell. 171: 148-162.e19. PMID 28938114 DOI: 10.1016/j.cell.2017.08.008  0.32
2017 Yan J, Nadell CD, Stone HA, Wingreen NS, Bassler BL. Extracellular-matrix-mediated osmotic pressure drives Vibrio cholerae biofilm expansion and cheater exclusion. Nature Communications. 8: 327. PMID 28835649 DOI: 10.1038/s41467-017-00401-1  0.92
2017 Paulick A, Jakovljevic V, Zhang S, Erickstad M, Groisman A, Meir Y, Ryu WS, Wingreen NS, Sourjik V. Mechanism of bidirectional thermotaxis in Escherichia coli. Elife. 6. PMID 28826491 DOI: 10.7554/eLife.26607  0.56
2017 Beroz F, Jawerth LM, Münster S, Weitz DA, Broedersz CP, Wingreen NS. Physical limits to biomechanical sensing in disordered fibre networks. Nature Communications. 8: 16096. PMID 28719577 DOI: 10.1038/ncomms16096  0.48
2017 Taillefumier T, Posfai A, Meir Y, Wingreen NS. Microbial consortia at steady supply. Elife. 6. PMID 28473032 DOI: 10.7554/eLife.22644  0.56
2016 Yan J, Sharo AG, Stone HA, Wingreen NS, Bassler BL. Vibrio cholerae biofilm growth program and architecture revealed by single-cell live imaging. Proceedings of the National Academy of Sciences of the United States of America. PMID 27555592 DOI: 10.1073/pnas.1611494113  0.92
2016 Drescher K, Dunkel J, Nadell CD, van Teeffelen S, Grnja I, Wingreen NS, Stone HA, Bassler BL. Architectural transitions in Vibrio cholerae biofilms at single-cell resolution. Proceedings of the National Academy of Sciences of the United States of America. PMID 26933214 DOI: 10.1073/pnas.1601702113  0.92
2015 Wingreen NS, Huang KC. Physics of Intracellular Organization in Bacteria. Annual Review of Microbiology. 69: 361-79. PMID 26488278 DOI: 10.1146/annurev-micro-091014-104313  1
2015 Borenstein DB, Ringel P, Basler M, Wingreen NS. Established Microbial Colonies Can Survive Type VI Secretion Assault. Plos Computational Biology. 11: e1004520. PMID 26485125 DOI: 10.1371/journal.pcbi.1004520  1
2015 Rutherford ST, Valastyan JS, Taillefumier T, Wingreen NS, Bassler BL. Comprehensive analysis reveals how single nucleotides contribute to noncoding RNA function in bacterial quorum sensing. Proceedings of the National Academy of Sciences of the United States of America. 112: E6038-47. PMID 26483489 DOI: 10.1073/pnas.1518958112  0.92
2015 Persat A, Nadell CD, Kim MK, Ingremeau F, Siryaporn A, Drescher K, Wingreen NS, Bassler BL, Gitai Z, Stone HA. The mechanical world of bacteria. Cell. 161: 988-97. PMID 26000479 DOI: 10.1016/j.cell.2015.05.005  1
2015 Taillefumier T, Wingreen NS. Optimal census by quorum sensing. Plos Computational Biology. 11: e1004238. PMID 25965377 DOI: 10.1371/journal.pcbi.1004238  1
2015 Bitbol AF, Wingreen NS. Fundamental constraints on the abundances of chemotaxis proteins. Biophysical Journal. 108: 1293-305. PMID 25762341 DOI: 10.1016/j.bpj.2015.01.024  1
2015 Wasnik V, Wingreen NS, Mukhopadhyay R. Modeling curvature-dependent subcellular localization of the small sporulation protein SpoVM in Bacillus subtilis. Plos One. 10: e0111971. PMID 25625300 DOI: 10.1371/journal.pone.0111971  1
2015 Nadell CD, Drescher K, Wingreen NS, Bassler BL. Extracellular matrix structure governs invasion resistance in bacterial biofilms. The Isme Journal. 9: 1700-9. PMID 25603396 DOI: 10.1038/ismej.2014.246  1
2015 Feng L, Rutherford ST, Papenfort K, Bagert JD, van Kessel JC, Tirrell DA, Wingreen NS, Bassler BL. A qrr noncoding RNA deploys four different regulatory mechanisms to optimize quorum-sensing dynamics. Cell. 160: 228-40. PMID 25579683 DOI: 10.1016/j.cell.2014.11.051  1
2015 Tikhonov M, Leach RW, Wingreen NS. Interpreting 16S metagenomic data without clustering to achieve sub-OTU resolution. The Isme Journal. 9: 68-80. PMID 25012900 DOI: 10.1038/ismej.2014.117  1
2014 Haselwandter CA, Wingreen NS. The role of membrane-mediated interactions in the assembly and architecture of chemoreceptor lattices. Plos Computational Biology. 10: e1003932. PMID 25503274 DOI: 10.1371/journal.pcbi.1003932  1
2014 Bassler BL, Wingreen NS. Working together at the interface of physics and biology. Physical Biology. 11: 053010. PMID 25294092 DOI: 10.1088/1478-3975/11/5/053010  1
2014 Castellana M, Wilson MZ, Xu Y, Joshi P, Cristea IM, Rabinowitz JD, Gitai Z, Wingreen NS. Enzyme clustering accelerates processing of intermediates through metabolic channeling. Nature Biotechnology. 32: 1011-8. PMID 25262299 DOI: 10.1038/nbt.3018  1
2014 Barry RM, Bitbol AF, Lorestani A, Charles EJ, Habrian CH, Hansen JM, Li HJ, Baldwin EP, Wingreen NS, Kollman JM, Gitai Z. Large-scale filament formation inhibits the activity of CTP synthetase. Elife. 3: e03638. PMID 25030911 DOI: 10.7554/eLife.03638  0.52
2014 Broedersz CP, Wang X, Meir Y, Loparo JJ, Rudner DZ, Wingreen NS. Condensation and localization of the partitioning protein ParB on the bacterial chromosome. Proceedings of the National Academy of Sciences of the United States of America. 111: 8809-14. PMID 24927534 DOI: 10.1073/pnas.1402529111  1
2014 Neumann S, Vladimirov N, Krembel AK, Wingreen NS, Sourjik V. Imprecision of adaptation in Escherichia coli chemotaxis. Plos One. 9: e84904. PMID 24416308 DOI: 10.1371/journal.pone.0084904  1
2014 Drescher K, Nadell CD, Stone HA, Wingreen NS, Bassler BL. Solutions to the public goods dilemma in bacterial biofilms. Current Biology : Cb. 24: 50-5. PMID 24332540 DOI: 10.1016/j.cub.2013.10.030  1
2013 Skoge M, Naqvi S, Meir Y, Wingreen NS. Chemical sensing by nonequilibrium cooperative receptors. Physical Review Letters. 110: 248102. PMID 25165963 DOI: 10.1103/PhysRevLett.110.248102  1
2013 Skoge M, Naqvi S, Meir Y, Wingreen NS. Chemical Sensing by Nonequilibrium Cooperative Receptors. Physical Review Letters. 110. PMID 25083000 DOI: 10.1103/PhysRevLett.110.248102  0.56
2013 Dwyer RS, Ricci DP, Colwell LJ, Silhavy TJ, Wingreen NS. Predicting functionally informative mutations in Escherichia coli BamA using evolutionary covariance analysis. Genetics. 195: 443-55. PMID 23934888 DOI: 10.1534/genetics.113.155861  1
2013 Borenstein DB, Meir Y, Shaevitz JW, Wingreen NS. Non-local interaction via diffusible resource prevents coexistence of cooperators and cheaters in a lattice model. Plos One. 8: e63304. PMID 23691017 DOI: 10.1371/journal.pone.0063304  0.56
2013 Wang S, Wingreen NS. Cell shape can mediate the spatial organization of the bacterial cytoskeleton. Biophysical Journal. 104: 541-52. PMID 23442905 DOI: 10.1016/j.bpj.2012.12.027  1
2012 Cooper RM, Wingreen NS, Cox EC. An excitable cortex and memory model successfully predicts new pseudopod dynamics. Plos One. 7: e33528. PMID 22457772 DOI: 10.1371/journal.pone.0033528  1
2012 Sourjik V, Wingreen NS. Responding to chemical gradients: bacterial chemotaxis. Current Opinion in Cell Biology. 24: 262-8. PMID 22169400 DOI: 10.1016/j.ceb.2011.11.008  1
2011 Swanson D, Wingreen NS. Active biopolymers confer fast reorganization kinetics. Physical Review Letters. 107: 218103. PMID 22181930 DOI: 10.1103/PhysRevLett.107.218103  1
2011 Skoge M, Meir Y, Wingreen NS. Dynamics of cooperativity in chemical sensing among cell-surface receptors. Physical Review Letters. 107: 178101. PMID 22107586 DOI: 10.1103/PhysRevLett.107.178101  1
2011 Doucette CD, Schwab DJ, Wingreen NS, Rabinowitz JD. α-Ketoglutarate coordinates carbon and nitrogen utilization via enzyme I inhibition. Nature Chemical Biology. 7: 894-901. PMID 22002719 DOI: 10.1038/nchembio.685  1
2011 Banigan EJ, Gelbart MA, Gitai Z, Wingreen NS, Liu AJ. Filament depolymerization can explain chromosome pulling during bacterial mitosis. Plos Computational Biology. 7: e1002145. PMID 21966261 DOI: 10.1371/journal.pcbi.1002145  1
2011 van Teeffelen S, Wang S, Furchtgott L, Huang KC, Wingreen NS, Shaevitz JW, Gitai Z. The bacterial actin MreB rotates, and rotation depends on cell-wall assembly. Proceedings of the National Academy of Sciences of the United States of America. 108: 15822-7. PMID 21903929 DOI: 10.1073/pnas.1108999108  1
2011 McIsaac RS, Huang KC, Sengupta A, Wingreen NS. Does the potential for chaos constrain the embryonic cell-cycle oscillator? Plos Computational Biology. 7: e1002109. PMID 21779158 DOI: 10.1371/journal.pcbi.1002109  1
2011 Wang Y, Tu KC, Ong NP, Bassler BL, Wingreen NS. Protein-level fluctuation correlation at the microcolony level and its application to the Vibrio harveyi quorum-sensing circuit. Biophysical Journal. 100: 3045-53. PMID 21689539 DOI: 10.1016/j.bpj.2011.05.006  1
2011 Teng SW, Schaffer JN, Tu KC, Mehta P, Lu W, Ong NP, Bassler BL, Wingreen NS. Active regulation of receptor ratios controls integration of quorum-sensing signals in Vibrio harveyi. Molecular Systems Biology. 7: 491. PMID 21613980 DOI: 10.1038/msb.2011.30  1
2011 Daly KE, Huang KC, Wingreen NS, Mukhopadhyay R. Mechanics of membrane bulging during cell-wall disruption in gram-negative bacteria. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 83: 041922. PMID 21599215 DOI: 10.1103/PhysRevE.83.041922  1
2011 Furchtgott L, Wingreen NS, Huang KC. Mechanisms for maintaining cell shape in rod-shaped Gram-negative bacteria. Molecular Microbiology. 81: 340-53. PMID 21501250 DOI: 10.1111/j.1365-2958.2011.07616.x  1
2011 Oleksiuk O, Jakovljevic V, Vladimirov N, Carvalho R, Paster E, Ryu WS, Meir Y, Wingreen NS, Kollmann M, Sourjik V. Thermal robustness of signaling in bacterial chemotaxis. Cell. 145: 312-21. PMID 21496648 DOI: 10.1016/j.cell.2011.03.013  1
2011 Mora T, Bai F, Che YS, Minamino T, Namba K, Wingreen NS. Non-genetic individuality in Escherichia coli motor switching. Physical Biology. 8: 024001. PMID 21422514 DOI: 10.1088/1478-3975/8/2/024001  1
2010 Nara PL, Tobin GJ, Chaudhuri AR, Trujillo JD, Lin G, Cho MW, Levin SA, Ndifon W, Wingreen NS. How can vaccines against influenza and other viral diseases be made more effective? Plos Biology. 8: e1000571. PMID 21203586 DOI: 10.1371/journal.pbio.1000571  1
2010 Wyart M, Botstein D, Wingreen NS. Evaluating gene expression dynamics using pairwise RNA FISH data. Plos Computational Biology. 6: e1000979. PMID 21079668 DOI: 10.1371/journal.pcbi.1000979  1
2010 Meir Y, Jakovljevic V, Oleksiuk O, Sourjik V, Wingreen NS. Precision and kinetics of adaptation in bacterial chemotaxis. Biophysical Journal. 99: 2766-74. PMID 21044573 DOI: 10.1016/j.bpj.2010.08.051  1
2010 Mora T, Wingreen NS. Limits of sensing temporal concentration changes by single cells. Physical Review Letters. 104: 248101. PMID 20867338 DOI: 10.1103/PhysRevLett.104.248101  1
2010 Hansen CH, Sourjik V, Wingreen NS. A dynamic-signaling-team model for chemotaxis receptors in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 107: 17170-5. PMID 20855582 DOI: 10.1073/pnas.1005017107  1
2010 Neumann S, Hansen CH, Wingreen NS, Sourjik V. Differences in signalling by directly and indirectly binding ligands in bacterial chemotaxis. The Embo Journal. 29: 3484-95. PMID 20834231 DOI: 10.1038/emboj.2010.224  1
2010 Goyal S, Yuan J, Chen T, Rabinowitz JD, Wingreen NS. Achieving optimal growth through product feedback inhibition in metabolism. Plos Computational Biology. 6: e1000802. PMID 20532205 DOI: 10.1371/journal.pcbi.1000802  1
2010 Teng SW, Wang Y, Tu KC, Long T, Mehta P, Wingreen NS, Bassler BL, Ong NP. Measurement of the copy number of the master quorum-sensing regulator of a bacterial cell. Biophysical Journal. 98: 2024-31. PMID 20441767 DOI: 10.1016/j.bpj.2010.01.031  1
2010 Ng WL, Wei Y, Perez LJ, Cong J, Long T, Koch M, Semmelhack MF, Wingreen NS, Bassler BL. Probing bacterial transmembrane histidine kinase receptor-ligand interactions with natural and synthetic molecules. Proceedings of the National Academy of Sciences of the United States of America. 107: 5575-80. PMID 20212168 DOI: 10.1073/pnas.1001392107  1
2010 Tu KC, Long T, Svenningsen SL, Wingreen NS, Bassler BL. Negative feedback loops involving small regulatory RNAs precisely control the Vibrio harveyi quorum-sensing response. Molecular Cell. 37: 567-79. PMID 20188674 DOI: 10.1016/j.molcel.2010.01.022  1
2010 Kidd PB, Wingreen NS. Modeling the role of covalent enzyme modification in Escherichia coli nitrogen metabolism. Physical Biology. 7: 016006. PMID 20057006 DOI: 10.1088/1478-3975/55/1/016006  1
2010 Zee BM, Levin RS, Xu B, LeRoy G, Wingreen NS, Garcia BA. In vivo residue-specific histone methylation dynamics. The Journal of Biological Chemistry. 285: 3341-50. PMID 19940157 DOI: 10.1074/jbc.M109.063784  1
2009 Mora T, Yu H, Wingreen NS. Modeling torque versus speed, shot noise, and rotational diffusion of the bacterial flagellar motor. Physical Review Letters. 103: 248102. PMID 20366231 DOI: 10.1103/PhysRevLett.103.248102  1
2009 Mukhopadhyay R, Wingreen NS. Curvature and shape determination of growing bacteria. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 80: 062901. PMID 20365209 DOI: 10.1103/PhysRevE.80.062901  1
2009 Mehta P, Goyal S, Long T, Bassler BL, Wingreen NS. Information processing and signal integration in bacterial quorum sensing. Molecular Systems Biology. 5: 325. PMID 19920810 DOI: 10.1038/msb.2009.79  1
2009 Endres RG, Wingreen NS. Maximum likelihood and the single receptor. Physical Review Letters. 103: 158101. PMID 19905667 DOI: 10.1103/PhysRevLett.103.158101  1
2009 Mora T, Yu H, Sowa Y, Wingreen NS. Steps in the bacterial flagellar motor. Plos Computational Biology. 5: e1000540. PMID 19851449 DOI: 10.1371/journal.pcbi.1000540  1
2009 Yuan J, Doucette CD, Fowler WU, Feng XJ, Piazza M, Rabitz HA, Wingreen NS, Rabinowitz JD. Metabolomics-driven quantitative analysis of ammonia assimilation in E. coli. Molecular Systems Biology. 5: 302. PMID 19690571 DOI: 10.1038/msb.2009.60  1
2009 Greenfield D, McEvoy AL, Shroff H, Crooks GE, Wingreen NS, Betzig E, Liphardt J. Self-organization of the Escherichia coli chemotaxis network imaged with super-resolution light microscopy. Plos Biology. 7: e1000137. PMID 19547746 DOI: 10.1371/journal.pbio.1000137  1
2009 Endres RG, Wingreen NS. Accuracy of direct gradient sensing by cell-surface receptors. Progress in Biophysics and Molecular Biology. 100: 33-9. PMID 19523978 DOI: 10.1016/j.pbiomolbio.2009.06.002  1
2009 Ndifon W, Wingreen NS, Levin SA. Differential neutralization efficiency of hemagglutinin epitopes, antibody interference, and the design of influenza vaccines. Proceedings of the National Academy of Sciences of the United States of America. 106: 8701-6. PMID 19439657 DOI: 10.1073/pnas.0903427106  1
2009 Long T, Tu KC, Wang Y, Mehta P, Ong NP, Bassler BL, Wingreen NS. Quantifying the integration of quorum-sensing signals with single-cell resolution. Plos Biology. 7: e68. PMID 19320539 DOI: 10.1371/journal.pbio.1000068  1
2008 Wang H, Wingreen NS, Mukhopadhyay R. Self-organized periodicity of protein clusters in growing bacteria. Physical Review Letters. 101: 218101. PMID 19113453 DOI: 10.1103/PhysRevLett.101.218101  1
2008 Huang KC, Mukhopadhyay R, Wen B, Gitai Z, Wingreen NS. Cell shape and cell-wall organization in Gram-negative bacteria. Proceedings of the National Academy of Sciences of the United States of America. 105: 19282-7. PMID 19050072 DOI: 10.1073/pnas.0805309105  1
2008 Guberman JM, Fay A, Dworkin J, Wingreen NS, Gitai Z. PSICIC: noise and asymmetry in bacterial division revealed by computational image analysis at sub-pixel resolution. Plos Computational Biology. 4: e1000233. PMID 19043544 DOI: 10.1371/journal.pcbi.1000233  1
2008 Mehta P, Goyal S, Wingreen NS. A quantitative comparison of sRNA-based and protein-based gene regulation. Molecular Systems Biology. 4: 221. PMID 18854820 DOI: 10.1038/msb.2008.58  1
2008 Endres RG, Wingreen NS. Accuracy of direct gradient sensing by single cells. Proceedings of the National Academy of Sciences of the United States of America. 105: 15749-54. PMID 18843108 DOI: 10.1073/pnas.0804688105  1
2008 Swem LR, Swem DL, Wingreen NS, Bassler BL. Deducing receptor signaling parameters from in vivo analysis: LuxN/AI-1 quorum sensing in Vibrio harveyi. Cell. 134: 461-73. PMID 18692469 DOI: 10.1016/j.cell.2008.06.023  1
2008 Endres RG, Oleksiuk O, Hansen CH, Meir Y, Sourjik V, Wingreen NS. Variable sizes of Escherichia coli chemoreceptor signaling teams. Molecular Systems Biology. 4: 211. PMID 18682701 DOI: 10.1038/msb.2008.49  1
2008 Pompeani AJ, Irgon JJ, Berger MF, Bulyk ML, Wingreen NS, Bassler BL. The Vibrio harveyi master quorum-sensing regulator, LuxR, a TetR-type protein is both an activator and a repressor: DNA recognition and binding specificity at target promoters. Molecular Microbiology. 70: 76-88. PMID 18681939 DOI: 10.1111/j.1365-2958.2008.06389.x  1
2008 Mehta P, Mukhopadhyay R, Wingreen NS. Exponential sensitivity of noise-driven switching in genetic networks. Physical Biology. 5: 026005. PMID 18560045 DOI: 10.1088/1478-3975/5/2/026005  1
2008 Mukhopadhyay R, Huang KC, Wingreen NS. Lipid localization in bacterial cells through curvature-mediated microphase separation. Biophysical Journal. 95: 1034-49. PMID 18390605 DOI: 10.1529/biophysj.107.126920  1
2008 Hansen CH, Endres RG, Wingreen NS. Chemotaxis in Escherichia coli: a molecular model for robust precise adaptation. Plos Computational Biology. 4: e1. PMID 18179279 DOI: 10.1371/journal.pcbi.0040001  1
2008 Vizcarra CL, Zhang N, Marshall SA, Wingreen NS, Zeng C, Mayo SL. An improved pairwise decomposable finite-difference Poisson-Boltzmann method for computational protein design. Journal of Computational Chemistry. 29: 1153-62. PMID 18074340 DOI: 10.1002/jcc.20878  1
2007 Sourjik V, Wingreen NS. Turning to the cold. Nature Cell Biology. 9: 1029-31. PMID 17762896 DOI: 10.1038/ncb0907-1029  1
2007 Goyal S, Wingreen NS. Growth-induced instability in metabolic networks. Physical Review Letters. 98: 138105. PMID 17501245 DOI: 10.1103/PhysRevLett.98.138105  1
2007 Li JL, Car R, Tang C, Wingreen NS. Hydrophobic interaction and hydrogen-bond network for a methane pair in liquid water. Proceedings of the National Academy of Sciences of the United States of America. 104: 2626-30. PMID 17299045 DOI: 10.1073/pnas.0610945104  1
2007 Weitz JS, Benfey PN, Wingreen NS. Evolution, interactions, and biological networks. Plos Biology. 5: e11. PMID 17227140 DOI: 10.1371/journal.pbio.0050011  0.64
2007 Ureta AR, Endres RG, Wingreen NS, Silhavy TJ. Kinetic analysis of the assembly of the outer membrane protein LamB in Escherichia coli mutants each lacking a secretion or targeting factor in a different cellular compartment. Journal of Bacteriology. 189: 446-54. PMID 17071751 DOI: 10.1128/JB.01103-06  1
2006 Huang KC, Mukhopadhyay R, Wingreen NS. A curvature-mediated mechanism for localization of lipids to bacterial poles. Plos Computational Biology. 2: e151. PMID 17096591 DOI: 10.1371/journal.pcbi.0020151  1
2006 Wingreen N, Botstein D. Back to the future: education for systems-level biologists. Nature Reviews. Molecular Cell Biology. 7: 829-32. PMID 16990789 DOI: 10.1038/nrm2023  1
2006 Wingreen NS, Levin SA. Cooperation among microorganisms. Plos Biology. 4: e299. PMID 16968138 DOI: 10.1371/journal.pbio.0040299  1
2006 Endres RG, Wingreen NS. Precise adaptation in bacterial chemotaxis through "assistance neighborhoods". Proceedings of the National Academy of Sciences of the United States of America. 103: 13040-4. PMID 16924119 DOI: 10.1073/pnas.0603101103  1
2006 Endres RG, Wingreen NS. Weight matrices for protein-DNA binding sites from a single co-crystal structure. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 73: 061921. PMID 16906878 DOI: 10.1103/PhysRevE.73.061921  1
2006 Skoge ML, Endres RG, Wingreen NS. Receptor-receptor coupling in bacterial chemotaxis: evidence for strongly coupled clusters. Biophysical Journal. 90: 4317-26. PMID 16565056 DOI: 10.1529/biophysj.105.079905  1
2006 Emberly E, Wingreen NS. Hourglass model for a protein-based circadian oscillator. Physical Review Letters. 96: 038303. PMID 16486780 DOI: 10.1103/PhysRevLett.96.038303  1
2006 Keymer JE, Endres RG, Skoge M, Meir Y, Wingreen NS. Chemosensing in Escherichia coli: two regimes of two-state receptors. Proceedings of the National Academy of Sciences of the United States of America. 103: 1786-91. PMID 16446460 DOI: 10.1073/pnas.0507438103  1
2006 Wingreen NS. A glossary of cellular components Physics Today. 59: 80-81. DOI: 10.1063/1.2364257  1
2005 Kruus E, Thumfort P, Tang C, Wingreen NS. Gibbs sampling and helix-cap motifs. Nucleic Acids Research. 33: 5343-53. PMID 16174845 DOI: 10.1093/nar/gki842  1
2005 Kloster M, Tang C, Wingreen NS. Finding regulatory modules through large-scale gene-expression data analysis. Bioinformatics (Oxford, England). 21: 1172-9. PMID 15513996 DOI: 10.1093/bioinformatics/bti096  1
2005 Li JL, Chun J, Wingreen NS, Car R, Aksay IA, Saville DA. Use of dielectric functions in the theory of dispersion forces Physical Review B - Condensed Matter and Materials Physics. 71. DOI: 10.1103/PhysRevB.71.235412  1
2004 Wingreen NS. Ammonia Transport. Ecosal Plus. 1. PMID 26443371 DOI: 10.1128/ecosalplus.3.3.2.1  1
2004 Huang KC, Wingreen NS. Min-protein oscillations in round bacteria. Physical Biology. 1: 229-35. PMID 16204843 DOI: 10.1088/1478-3967/1/4/005  1
2004 Kulkarni RV, Huang KC, Kloster M, Wingreen NS. Pattern formation within Escherichia coli: diffusion, membrane attachment, and self-interaction of MinD molecules. Physical Review Letters. 93: 228103. PMID 15601121 DOI: 10.1103/PhysRevLett.93.228103  1
2004 Zhang N, Zeng C, Wingreen NS. Fast accurate evaluation of protein solvent exposure. Proteins. 57: 565-76. PMID 15382246 DOI: 10.1002/prot.20191  1
2004 Endres RG, Schulthess TC, Wingreen NS. Toward an atomistic model for predicting transcription-factor binding sites. Proteins. 57: 262-8. PMID 15340913 DOI: 10.1002/prot.20199  1
2004 Lenz DH, Mok KC, Lilley BN, Kulkarni RV, Wingreen NS, Bassler BL. The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae. Cell. 118: 69-82. PMID 15242645 DOI: 10.1016/j.cell.2004.06.009  1
2004 Wingreen NS. Physics. Quantum many-body effects in a single-electron transistor. Science (New York, N.Y.). 304: 1258-9. PMID 15166353 DOI: 10.1126/science.1098302  1
2004 Emberly EG, Mukhopadhyay R, Tang C, Wingreen NS. Flexibility of beta-sheets: principal component analysis of database protein structures. Proteins. 55: 91-8. PMID 14997543 DOI: 10.1002/prot.10618  1
2004 Wingreen NS, Li H, Tang C. Designability and thermal stability of protein structures Polymer. 45: 699-705. DOI: 10.1016/j.polymer.2003.10.062  1
2004 Hirose K, Meir Y, Wingreen NS. Time-dependent density functional theory of excitation energies of closed-shell quantum dots Physica E: Low-Dimensional Systems and Nanostructures. 22: 486-489. DOI: 10.1016/j.physe.2003.12.051  1
2003 Mukhopadhyay R, Emberly E, Tang C, Wingreen NS. Statistical mechanics of RNA folding: importance of alphabet size. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 68: 041904. PMID 14682970  1
2003 Huang KC, Meir Y, Wingreen NS. Dynamic structures in Escherichia coli: spontaneous formation of MinE rings and MinD polar zones. Proceedings of the National Academy of Sciences of the United States of America. 100: 12724-8. PMID 14569005 DOI: 10.1073/pnas.2135445100  1
2003 Wingreen NS, Miller J, Cox EC. Scaling of mutational effects in models for pleiotropy. Genetics. 164: 1221-8. PMID 12871926  1
2003 Emberly EG, Mukhopadhyay R, Wingreen NS, Tang C. Flexibility of alpha-helices: results of a statistical analysis of database protein structures. Journal of Molecular Biology. 327: 229-37. PMID 12614621 DOI: 10.1016/S0022-2836(03)00097-4  1
2003 Mok KC, Wingreen NS, Bassler BL. Vibrio harveyi quorum sensing: a coincidence detector for two autoinducers controls gene expression. The Embo Journal. 22: 870-81. PMID 12574123 DOI: 10.1093/emboj/cdg085  1
2003 Hirose K, Meir Y, Wingreen NS. Local moment formation in quantum point contacts. Physical Review Letters. 90: 026804. PMID 12570569  1
2003 Hirose K, Wingreen NS. Stabilization of ground-state minimal spin in disordered quantum dots Physica E: Low-Dimensional Systems and Nanostructures. 18: 79-80. DOI: 10.1016/S1386-9477(02)00983-9  1
2003 Hirose K, Meir Y, Wingreen NS. Instability to local moment formation in a quantum point contact Journal of the Physical Society of Japan. 72: 85-86.  1
2002 Meir Y, Hirose K, Wingreen NS. Kondo model for the "0.7 anomaly" in transport through a quantum point contact. Physical Review Letters. 89: 196802. PMID 12443139  0.56
2002 Li H, Tang C, Wingreen NS. Designability of protein structures: a lattice-model study using the Miyazawa-Jernigan matrix. Proteins. 49: 403-12. PMID 12360530 DOI: 10.1002/prot.10239  1
2002 Emberly EG, Wingreen NS, Tang C. Designability of alpha-helical proteins. Proceedings of the National Academy of Sciences of the United States of America. 99: 11163-8. PMID 12177419 DOI: 10.1073/pnas.162105999  1
2002 Cronenwett SM, Lynch HJ, Goldhaber-Gordon D, Kouwenhoven LP, Marcus CM, Hirose K, Wingreen NS, Umansky V. Low-temperature fate of the 0.7 structure in a point contact: a Kondo-like correlated state in an open system. Physical Review Letters. 88: 226805. PMID 12059445  1
2002 Miller J, Zeng C, Wingreen NS, Tang C. Emergence of highly designable protein-backbone conformations in an off-lattice model. Proteins. 47: 506-12. PMID 12001229 DOI: 10.1002/prot.10107  1
2002 Emberly EG, Miller J, Zeng C, Wingreen NS, Tang C. Identifying proteins of high designability via surface-exposure patterns. Proteins. 47: 295-304. PMID 11948783 DOI: 10.1002/prot.10067  1
2002 Meir Y, Hirose K, Wingreen NS. Kondo model for the '0.7 anomaly' in transport through a quantum point contact Physical Review Letters. 89: 196802/1-196802/4.  1
2002 Tang C, Wingreen NS. Toward designing novel protein folds Nec Research and Development. 43: 242-245.  1
2002 Hirose K, Wingreen NS. Ground-state energy and spin in disordered quantum dots Physical Review B - Condensed Matter and Materials Physics. 65: 1933051-1933054.  1
2001 Wingreen NS. The Kondo effect in novel systems Materials Science and Engineering B: Solid-State Materials For Advanced Technology. 84: 22-25. DOI: 10.1016/S0921-5107(01)00551-7  1
2001 Grupp DE, Zhang T, Dolan GJ, Wingreen NS. Dynamical offset charges in single-electron transistors Physical Review Letters. 87: 1868051-1868054.  1
2001 Madhavan V, Chen W, Jamneala T, Crommie MF, Wingreen NS. Local spectroscopy of a Kondo impurity: Co on Au(111) Physical Review B - Condensed Matter and Materials Physics. 64: 1654121-16541211.  1
2001 Hirose K, Wingreen NS. Temperature-dependent suppression of conductance in quantum wires: Anomalous activation energy from pinning of the band edge Physical Review B - Condensed Matter and Materials Physics. 64: 733051-733054.  1
2001 Hirose K, Zhou F, Wingreen NS. Density-functional theory of spin-polarized disordered quantum dots Physical Review B - Condensed Matter and Materials Physics. 63: 0753011-0753015.  1
2001 Hirose K, Li SS, Wingreen NS. Mechanisms for extra conductance plateaus in quantum wires Physical Review B - Condensed Matter and Materials Physics. 63: 333151-333154.  1
2000 Wang T, Miller J, Wingreen NS, Tang C, Dill KA. Symmetry and designability for lattice protein models Journal of Chemical Physics. 113: 8329-8336. DOI: 10.1063/1.1315324  1
2000 Nordlander P, Wingreen NS, Meir Y, Langreth DC. Kondo physics in the single-electron transistor with ac driving Physical Review B - Condensed Matter and Materials Physics. 61: 2146-2150.  1
1999 Hirose K, Wingreen NS. Spin-density-functional theory of circular and elliptical quantum dots Physical Review B - Condensed Matter and Materials Physics. 59: 4604-4607.  1
1999 Smolyarenko IE, Wingreen NS. Kondo effect in systems with spin disorder Physical Review B - Condensed Matter and Materials Physics. 60: 9675-9689.  1
1999 Heide C, Elliott RJ, Wingreen NS. Spin-polarized tunnel current in magnetic-layer systems and its relation to the interlayer exchange interaction Physical Review B - Condensed Matter and Materials Physics. 59: 4287-4304.  1
1999 Hirose K, Wingreen NS. Electronic structure calculations of quantum dots Nec Research and Development. 40: 419-423.  1
1999 Nordlander P, Pustilnik M, Meir Y, Wingreen NS, Langreth DC. How long does it take for the Kondo effect to develop? Physical Review Letters. 83: 808-811.  1
1998 Barkai N, Rose MD, Wingreen NS. Protease helps yeast find mating partners. Nature. 396: 422-3. PMID 9853747 DOI: 10.1038/24760  1
1998 Li H, Tang C, Wingreen NS. Are protein folds atypical? Proceedings of the National Academy of Sciences of the United States of America. 95: 4987-90. PMID 9560215 DOI: 10.1073/pnas.95.9.4987  1
1998 Madhavan V, Chen W, Jamneala T, Crommie MF, Wingreen NS. Tunneling into a single magnetic atom: spectroscopic evidence of the kondo resonance Science (New York, N.Y.). 280: 567-9. PMID 9554843 DOI: 10.1126/science.280.5363.567  1
1998 Elliott RJ, Heide C, Wingreen NS. The RKKY interaction across a tunnelling junction out of equilibrium in relation to the spin current Journal of Magnetism and Magnetic Materials. 177: 769-770.  1
1997 Wingreen NS, Stafford CA. Quantum-dot cascade laser: Proposal for an ultralow-threshold semiconductor laser Ieee Journal of Quantum Electronics. 33: 1170-1173. DOI: 10.1109/3.594880  1
1997 Agam O, Wingreen NS, Altshuler BL, Ralph DC, Tinkham M. Chaos, interactions, and nonequilibrium effects in the tunneling resonance spectra of ultrasmall metallic particles Physical Review Letters. 78: 1956-1959.  1
1997 Li H, Tang C, Wingreen NS. Nature of driving force for protein folding: A result from analyzing the statistical potential Physical Review Letters. 79: 765-768.  1
1997 Aleiner IL, Wingreen NS, Meir Y. Dephasing and the orthogonality catastrophe in tunneling through a quantum dot: The "which path?" interferometer Physical Review Letters. 79: 3740-3743.  1
1996 Yacoby A, Stormer HL, Wingreen NS, Pfeiffer LN, Baldwin KW, West KW. Nonuniversal Conductance Quantization in Quantum Wires. Physical Review Letters. 77: 4612-4615. PMID 10062582  1
1996 Stafford CA, Wingreen NS. Resonant photon-assisted tunneling through a double quantum dot: An electron pump from spatial Rabi oscillations. Physical Review Letters. 76: 1916-1919. PMID 10060553  1
1996 Schwabe NF, Elliott RJ, Wingreen NS. Ruderman-Kittel-Kasuya-Yosida interaction across a tunneling junction out of equilibrium. Physical Review. B, Condensed Matter. 54: 12953-12968. PMID 9985154  1
1996 Sivan N, Wingreen NS. Single-impurity Anderson model out of equilibrium. Physical Review. B, Condensed Matter. 54: 11622-11629. PMID 9984951  1
1995 Wingreen NS, Altshuler BL, Meir Y. Comment on "2-channel Kondo scaling in conductance signals from 2-level tunneling systems" Physical Review Letters. 75: 769. PMID 10060111  0.56
1995 Wingreen NS, Altshuler BL, Meir Y. Comment on ductance signals from 2-level tunneling systems Physical Review Letters. 75: 769. DOI: 10.1103/PhysRevLett.75.769  1
1994 Wingreen NS, Meir Y. Anderson model out of equilibrium: Noncrossing-approximation approach to transport through a quantum dot. Physical Review. B, Condensed Matter. 49: 11040-11052. PMID 10009950 DOI: 10.1103/PhysRevB.49.11040  1
1994 Jauho AP, Wingreen NS, Meir Y. Time-dependent transport in interacting and noninteracting resonant-tunneling systems. Physical Review. B, Condensed Matter. 50: 5528-5544. PMID 9976896 DOI: 10.1103/PhysRevB.50.5528  1
1994 Meir Y, Wingreen NS. Spin-orbit scattering and the Kondo effect. Physical Review. B, Condensed Matter. 50: 4947-4950. PMID 9976819 DOI: 10.1103/PhysRevB.50.4947  1
1994 Jauho AP, Wingreen NS, Meir Y. Time-dependent transport in mesoscopic systems: General formalism and applications Semiconductor Science and Technology. 9: 926-929. DOI: 10.1088/0268-1242/9/5S/141  1
1994 Lee M, Wingreen NS, Solin SA, Wolff PA. Giant growth axis longitudinal magnetoresistance from in-plane conduction in semiconductor superlattices Solid State Communications. 89: 687-691. DOI: 10.1016/0038-1098(94)90577-0  1
1993 Middleton AA, Wingreen NS. Collective transport in arrays of small metallic dots. Physical Review Letters. 71: 3198-3201. PMID 10054882 DOI: 10.1103/PhysRevLett.71.3198  1
1993 Meir Y, Wingreen NS, Lee PA. Low-temperature transport through a quantum dot: The Anderson model out of equilibrium. Physical Review Letters. 70: 2601-2604. PMID 10053604 DOI: 10.1103/PhysRevLett.70.2601  1
1993 Wingreen NS, Jauho AP, Meir Y. Time-dependent transport through a mesoscopic structure. Physical Review. B, Condensed Matter. 48: 8487-8490. PMID 10007056 DOI: 10.1103/PhysRevB.48.8487  1
1993 Foxman EB, McEuen PL, Meirav U, Wingreen NS, Meir Y, Belk PA, Belk NR, Kastner MA, Wind SJ. Effects of quantum levels on transport through a Coulomb island. Physical Review. B, Condensed Matter. 47: 10020-10023. PMID 10005100 DOI: 10.1103/PhysRevB.47.10020  1
1993 Kinaret JM, Wingreen NS. Coulomb blockade and partially transparent tunneling barriers in the quantum Hall regime Physical Review B. 48: 11113-11119. DOI: 10.1103/PhysRevB.48.11113  1
1993 McEuen PL, Wingreen NS, Foxman EB, Kinaret J, Meirav U, Kastner MA, Meir Y, Wind SJ. Coulomb interactions and energy-level spectrum of a small electron gas Physica B: Physics of Condensed Matter. 189: 70-79. DOI: 10.1016/0921-4526(93)90147-X  1
1992 Kinaret JM, Meir Y, Wingreen NS, Lee PA, Wen XG. Many-body coherence effects in conduction through a quantum dot in the fractional quantum Hall regime. Physical Review. B, Condensed Matter. 46: 4681-4692. PMID 10004225  0.56
1992 Meir Y, Wingreen NS. Landauer formula for the current through an interacting electron region Physical Review Letters. 68: 2512-2515. DOI: 10.1103/PhysRevLett.68.2512  1
1992 Kinaret JM, Meir Y, Wingreen NS, Lee PA, Wen XG. Many-body coherence effects in conduction through a quantum dot in the fractional quantum Hall regime Physical Review B. 46: 4681-4692. DOI: 10.1103/PhysRevB.46.4681  1
1992 Kinaret JM, Meir Y, Wingreen NS, Lee P, Wen XG. Conductance through a quantum dot in the fractional quantum Hall regime Physical Review B. 45: 9489-9492. DOI: 10.1103/PhysRevB.45.9489  1
1992 McEuen PL, Foxman EB, Kinaret J, Meirav U, Kastner MA, Wingreen NS, Wind SJ. Self-consistent addition spectrum of a Coulomb island in the quantum Hall regime Physical Review B. 45: 11419-11422. DOI: 10.1103/PhysRevB.45.11419  1
1991 McEuen PL, Foxman EB, Meirav U, Kastner MA, Meir Y, Wingreen NS, Wind SJ. Transport spectroscopy of a Coulomb island in the quantum Hall regime. Physical Review Letters. 66: 1926-1929. PMID 10043345 DOI: 10.1103/PhysRevLett.66.1926  1
1991 Meir Y, Wingreen NS, Lee PA. Transport through a strongly interacting electron system: Theory of periodic conductance oscillations Physical Review Letters. 66: 3048-3051. DOI: 10.1103/PhysRevLett.66.3048  1
1991 Meir Y, Wingreen NS, Entin-Wohlman O, Altshuler BL. Spin-orbit scattering for localized electrons: Absence of negative magnetoconductance Physical Review Letters. 66: 1517-1520. DOI: 10.1103/PhysRevLett.66.1517  1
1990 Wingreen NS. Rectification by resonant tunneling diodes Applied Physics Letters. 56: 253-255. DOI: 10.1063/1.102820  1
1989 Wingreen NS, Jacobsen KW, Wilkins JW. Inelastic scattering in resonant tunneling. Physical Review. B, Condensed Matter. 40: 11834-11850. PMID 9991790 DOI: 10.1103/PhysRevB.40.11834  1
1989 Wingreen NS, Combescot M. Electron-electron scattering: Collision integral and relaxation rate Physical Review B. 40: 3191-3196. DOI: 10.1103/PhysRevB.40.3191  1
1989 Wingreen NS, Combescot M. Ohm's law for hot carriers: The role of carrier-carrier scattering at high fields Solid State Communications. 70: 185-189. DOI: 10.1016/0038-1098(89)90971-X  1
1988 Wingreen NS, Jacobsen KW, Wilkins JW. Resonant tunneling with electron-phonon interaction: An exactly solvable model. Physical Review Letters. 61: 1396-1399. PMID 10038783 DOI: 10.1103/PhysRevLett.61.1396  1
1987 Wingreen NS, Stanton CJ, Wilkins JW. Wingreen, Stanton, and Wilkins reply. Physical Review Letters. 59: 376. PMID 10035749  0.72
1987 Wingreen NS, Stanton CJ, Wilkins JW. Wingreen, Stanton, and Wilkins reply [3] Physical Review Letters. 59: 376. DOI: 10.1103/PhysRevLett.59.376  1
1986 Wingreen NS, Stanton CJ, Wilkins JW. Electron-electron scattering in nondegenerate semiconductors: Driving the anisotropic distribution toward a displaced Maxwellian. Physical Review Letters. 57: 1084-1087. PMID 10034241 DOI: 10.1103/PhysRevLett.57.1084  1
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