Greenfield, Derek, Ann L McEvoy, Hari Shroff, Gavin E Crooks, Ned S Wingreen, Eric Betzig, and Jan Liphardt. (2009) 2009. “Self-Organization of the Escherichia Coli Chemotaxis Network Imaged With Super-Resolution Light Microscopy.”. PLoS Biol 7 (6): e1000137.

Mora, Thierry, Fan Bai, Yong-Suk Che, Tohru Minamino, Keiichi Namba, and Ned S Wingreen. (2011) 2011. “Non-Genetic Individuality in Escherichia Coli Motor Switching.”. Phys Biol 8 (2): 024001.

Tikhonov, Mikhail, Robert W Leach, and Ned S Wingreen. (2015) 2015. “Interpreting 16S Metagenomic Data Without Clustering to Achieve Sub-OTU Resolution.”. ISME J 9 (1): 68-80.

Cooper, Robert M, Ned S Wingreen, and Edward C Cox. 2012. “An Excitable Cortex and Memory Model Successfully Predicts New Pseudopod Dynamics.”. PLoS One 7 (3): e33528.

Wingreen, Ned S, and Simon A Levin. (2006) 2006. “Cooperation Among Microorganisms.”. PLoS Biol 4 (9): e299.

Wingreen, Ned S, Jonathan Miller, and Edward C Cox. (2003) 2003. “Scaling of Mutational Effects in Models for Pleiotropy.”. Genetics 164 (3): 1221-8.

Tu, Kimberly C, Tao Long, Sine L Svenningsen, Ned S Wingreen, and Bonnie L Bassler. (2010) 2010. “Negative Feedback Loops Involving Small Regulatory RNAs Precisely Control the Vibrio Harveyi Quorum-Sensing Response.”. Mol Cell 37 (4): 567-79.

Mehta, Pankaj, Sidhartha Goyal, Tao Long, Bonnie L Bassler, and Ned S Wingreen. 2009. “Information Processing and Signal Integration in Bacterial Quorum Sensing.”. Mol Syst Biol 5: 325.

Weitz, Joshua S, Philip N Benfey, and Ned S Wingreen. (2007) 2007. “Evolution, Interactions, and Biological Networks.”. PLoS Biol 5 (1): e11.

Broedersz, Chase P, Xindan Wang, Yigal Meir, Joseph J Loparo, David Z Rudner, and Ned S Wingreen. (2014) 2014. “Condensation and Localization of the Partitioning Protein ParB on the Bacterial Chromosome.”. Proc Natl Acad Sci U S A 111 (24): 8809-14.

Doucette, Christopher D, David J Schwab, Ned S Wingreen, and Joshua D Rabinowitz. (2011) 2011. “α-Ketoglutarate Coordinates Carbon and Nitrogen Utilization via Enzyme I Inhibition.”. Nat Chem Biol 7 (12): 894-901.

Haselwandter, Christoph A, and Ned S Wingreen. (2014) 2014. “The Role of Membrane-Mediated Interactions in the Assembly and Architecture of Chemoreceptor Lattices.”. PLoS Comput Biol 10 (12): e1003932.

Mora, Thierry, Howard Yu, and Ned S Wingreen. (2009) 2009. “Modeling Torque Versus Speed, Shot Noise, and Rotational Diffusion of the Bacterial Flagellar Motor.”. Phys Rev Lett 103 (24): 248102.

Zee, Barry M, Rebecca S Levin, Bo Xu, Gary LeRoy, Ned S Wingreen, and Benjamin A Garcia. (2010) 2010. “In Vivo Residue-Specific Histone Methylation Dynamics.”. J Biol Chem 285 (5): 3341-50.

Wyart, Matthieu, David Botstein, and Ned S Wingreen. 2010. “Evaluating Gene Expression Dynamics Using Pairwise RNA FISH Data.”. PLoS Comput Biol 6 (11): e1000979.

Endres, Robert G, Joseph J Falke, and Ned S Wingreen. (2007) 2007. “Chemotaxis Receptor Complexes: From Signaling to Assembly.”. PLoS Comput Biol 3 (7): e150.

Bassler, Bonnie L, and Ned S Wingreen. (2014) 2014. “Working Together at the Interface of Physics and Biology.”. Phys Biol 11 (5): 053010.

Sourjik, Victor, and Ned S Wingreen. (2012) 2012. “Responding to Chemical Gradients: Bacterial Chemotaxis.”. Curr Opin Cell Biol 24 (2): 262-8.

Kidd, Philip B, and Ned S Wingreen. (2010) 2010. “Modeling the Role of Covalent Enzyme Modification in Escherichia Coli Nitrogen Metabolism.”. Phys Biol 7 (1): 016006.

Vizcarra, Christina L, Naigong Zhang, Shannon A Marshall, Ned S Wingreen, Chen Zeng, and Stephen L Mayo. (2008) 2008. “An Improved Pairwise Decomposable Finite-Difference Poisson-Boltzmann Method for Computational Protein Design.”. J Comput Chem 29 (7): 1153-62.

Castellana, Michele, Maxwell Z Wilson, Yifan Xu, Preeti Joshi, Ileana M Cristea, Joshua D Rabinowitz, Zemer Gitai, and Ned S Wingreen. (2014) 2014. “Enzyme Clustering Accelerates Processing of Intermediates through Metabolic Channeling.”. Nat Biotechnol 32 (10): 1011-8.

Hansen, Clinton H, Robert G Endres, and Ned S Wingreen. (2008) 2008. “Chemotaxis in Escherichia Coli: A Molecular Model for Robust Precise Adaptation.”. PLoS Comput Biol 4 (1): e1.

Endres, Robert G, and Ned S Wingreen. (2006) 2006. “Weight Matrices for Protein-DNA Binding Sites from a Single Co-Crystal Structure.”. Phys Rev E Stat Nonlin Soft Matter Phys 73 (6 Pt 1): 061921.

Skoge, Monica L, Robert G Endres, and Ned S Wingreen. (2006) 2006. “Receptor-Receptor Coupling in Bacterial Chemotaxis: Evidence for Strongly Coupled Clusters.”. Biophys J 90 (12): 4317-26.

Huang, Kerwyn Casey, and Ned S Wingreen. (2004) 2004. “Min-Protein Oscillations in Round Bacteria.”. Phys Biol 1 (3-4): 229-35.

Neumann, Silke, Nikita Vladimirov, Anna K Krembel, Ned S Wingreen, and Victor Sourjik. 2014. “Imprecision of Adaptation in Escherichia Coli Chemotaxis.”. PLoS One 9 (1): e84904.

Miller, Jonathan, Chen Zeng, Ned S Wingreen, and Chao Tang. (2002) 2002. “Emergence of Highly Designable Protein-Backbone Conformations in an off-Lattice Model.”. Proteins 47 (4): 506-12.

Keymer, Juan E, Robert G Endres, Monica Skoge, Yigal Meir, and Ned S Wingreen. (2006) 2006. “Chemosensing in Escherichia Coli: Two Regimes of Two-State Receptors.”. Proc Natl Acad Sci U S A 103 (6): 1786-91.

Mok, Kenny C, Ned S Wingreen, and Bonnie L Bassler. (2003) 2003. “Vibrio Harveyi Quorum Sensing: A Coincidence Detector for Two Autoinducers Controls Gene Expression.”. EMBO J 22 (4): 870-81.

Mehta, Pankaj, Sidhartha Goyal, and Ned S Wingreen. 2008. “A Quantitative Comparison of SRNA-Based and Protein-Based Gene Regulation.”. Mol Syst Biol 4: 221.

Yuan, Jie, Christopher D Doucette, William U Fowler, Xiao-Jiang Feng, Matthew Piazza, Herschel A Rabitz, Ned S Wingreen, and Joshua D Rabinowitz. 2009. “Metabolomics-Driven Quantitative Analysis of Ammonia Assimilation in E. Coli.”. Mol Syst Biol 5: 302.

Emberly, Eldon G, Jonathan Miller, Chen Zeng, Ned S Wingreen, and Chao Tang. (2002) 2002. “Identifying Proteins of High Designability via Surface-Exposure Patterns.”. Proteins 47 (3): 295-304.

Hansen, Clinton H, Victor Sourjik, and Ned S Wingreen. (2010) 2010. “A Dynamic-Signaling-Team Model for Chemotaxis Receptors in Escherichia Coli.”. Proc Natl Acad Sci U S A 107 (40): 17170-5.

Skoge, Monica, Sahin Naqvi, Yigal Meir, and Ned S Wingreen. (2013) 2013. “Chemical Sensing by Nonequilibrium Cooperative Receptors.”. Phys Rev Lett 110 (24): 248102.

Pompeani, Audra J, Joseph J Irgon, Michael F Berger, Martha L Bulyk, Ned S Wingreen, and Bonnie L Bassler. (2008) 2008. “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.”. Mol Microbiol 70 (1): 76-88.

Long, Tao, Kimberly C Tu, Yufang Wang, Pankaj Mehta, N P Ong, Bonnie L Bassler, and Ned S Wingreen. (2009) 2009. “Quantifying the Integration of Quorum-Sensing Signals With Single-Cell Resolution.”. PLoS Biol 7 (3): e68.

Furchtgott, Leon, Ned S Wingreen, and Kerwyn Casey Huang. (2011) 2011. “Mechanisms for Maintaining Cell Shape in Rod-Shaped Gram-Negative Bacteria.”. Mol Microbiol 81 (2): 340-53.

Li, Je-Luen, Roberto Car, Chao Tang, and Ned S Wingreen. (2007) 2007. “Hydrophobic Interaction and Hydrogen-Bond Network for a Methane Pair in Liquid Water.”. Proc Natl Acad Sci U S A 104 (8): 2626-30.

Skoge, Monica, Yigal Meir, and Ned S Wingreen. (2011) 2011. “Dynamics of Cooperativity in Chemical Sensing Among Cell-Surface Receptors.”. Phys Rev Lett 107 (17): 178101.

Skoge, Monica, Sahin Naqvi, Yigal Meir, and Ned S Wingreen. (2013) 2013. “Chemical Sensing by Nonequilibrium Cooperative Receptors.”. Phys Rev Lett 110 (24).

Endres, Robert G, Olga Oleksiuk, Clinton H Hansen, Yigal Meir, Victor Sourjik, and Ned S Wingreen. 2008. “Variable Sizes of Escherichia Coli Chemoreceptor Signaling Teams.”. Mol Syst Biol 4: 211.

Guberman, Jonathan M, Allison Fay, Jonathan Dworkin, Ned S Wingreen, and Zemer Gitai. (2008) 2008. “PSICIC: Noise and Asymmetry in Bacterial Division Revealed by Computational Image Analysis at Sub-Pixel Resolution.”. PLoS Comput Biol 4 (11): e1000233.

Daly, Kristopher E, Kerwyn Casey Huang, Ned S Wingreen, and Ranjan Mukhopadhyay. (2011) 2011. “Mechanics of Membrane Bulging During Cell-Wall Disruption in Gram-Negative Bacteria.”. Phys Rev E Stat Nonlin Soft Matter Phys 83 (4 Pt 1): 041922.

Nara, Peter L, Gregory J Tobin, Ray Chaudhuri, Jessie D Trujillo, George Lin, Michael W Cho, Simon A Levin, Wilfred Ndifon, and Ned S Wingreen. 2010. “How Can Vaccines Against Influenza and Other Viral Diseases Be Made More Effective?”. PLoS Biol 8 (12): e1000571.

Huang, Kerwyn Casey, Yigal Meir, and Ned S Wingreen. (2003) 2003. “Dynamic Structures in Escherichia Coli: Spontaneous Formation of MinE Rings and MinD Polar Zones.”. Proc Natl Acad Sci U S A 100 (22): 12724-8.

Wang, Siyuan, and Ned S Wingreen. (2013) 2013. “Cell Shape Can Mediate the Spatial Organization of the Bacterial Cytoskeleton.”. Biophys J 104 (3): 541-52.

Sourjik, Victor, and Ned S Wingreen. (2007) 2007. “Turning to the Cold.”. Nat Cell Biol 9 (9): 1029-31.

Wang, Yufang, Kimberly C Tu, N P Ong, Bonnie L Bassler, and Ned S Wingreen. (2011) 2011. “Protein-Level Fluctuation Correlation at the Microcolony Level and Its Application to the Vibrio Harveyi Quorum-Sensing Circuit.”. Biophys J 100 (12): 3045-53.

Teng, Shu-Wen, Yufang Wang, Kimberly C Tu, Tao Long, Pankaj Mehta, Ned S Wingreen, Bonnie L Bassler, and N P Ong. (2010) 2010. “Measurement of the Copy Number of the Master Quorum-Sensing Regulator of a Bacterial Cell.”. Biophys J 98 (9): 2024-31.

Emberly, Eldon, and Ned S Wingreen. (2006) 2006. “Hourglass Model for a Protein-Based Circadian Oscillator.”. Phys Rev Lett 96 (3): 038303.