Submitted
50. C. Dubois*, S. Gupta*, A. Mugler, and M.-A. Félix (*equal contributors). Sensitivity to perturbations of a cell migration under temporal regulation.
49. U. Roy and A. Mugler. Effects of cell-cell adhesion on migration of multicellular clusters. arXiv:2007.04550. [preprint]
48. M. Vennettilli, A. Erez, and A. Mugler. Multicellular sensing at a feedback-induced critical point. arXiv:2005.07010. [preprint]
47. S. Fancher and A. Mugler. Diffusion vs. direct transport in the precision of morphogen readout. arXiv:1806.08318. [preprint]
2020
46. A. Erez, T. A. Byrd, M. Vennettilli, and A. Mugler. Cell-to-cell information at a feedback-induced bifurcation point. Physical Review Letters 125:048103, 2020. [paper] [preprint]
45. S. Gupta, S. Fancher, H. C. Korswagen, and A. Mugler. Temporal precision of molecular events with regulation and feedback. Physical Review E 101:062420, 2020. [paper] [preprint]
44. S. Fancher, M. Vennettilli, N. Hilgert, and A. Mugler. Precision of flow sensing by self-communicating cells. Physical Review Letters 124:168101, 2020. [paper] [preprint]
43. X. Zhai, J. W. Larkin, G. M. Süel, and A. Mugler. Spiral wave propagation in communities with spatially correlated heterogeneity. Biophysical Journal 118(5):1-12, 2020. [paper] [preprint]
2019
42. X. Zhai, J. W. Larkin, K. Kikuchi, S. E. Redford, U. Roy, G. M. Süel, and A. Mugler. Statistics of correlated percolation in a bacterial community. PLoS Computational Biology 15(12):e1007508, 2019. [paper] [preprint]
41. T. A. Byrd*, A. Erez*, R. M. Vogel, C. Peterson, M. Vennettilli, G. Altan-Bonnet, and A. Mugler (*equal contributors). Critical slowing down in biochemical networks with feedback. Physical Review E 100:022415, 2019. [paper] [preprint]
40. A. T. Blanchard, A. S. Bazrafshan, J. Yi, J. T. Eisman, K. M. Yehl, T. Bian, A. Mugler, and K. Salaita. Highly polyvalent DNA motors generate 100+ pN of force via autochemophoresis. Nano Letters 19:6977-6986, 2019. [paper]
39. J. Varennes*, H. Moon*, S. Saha, A. Mugler, and B. Han (*equal contributors). Physical constraints on accuracy and persistence during breast cancer cell chemotaxis. PLoS Computational Biology 15(4):e1006961, 2019. [paper] [preprint]
38. A. Erez*, T. A. Byrd*, R. M. Vogel, G. Altan-Bonnet, and A. Mugler (*equal contributors). Universality of biochemical feedback and its application to immune cells. Physical Review E 99:022422, 2019. [paper] [preprint]
2018
37. J. W. Larkin, X. Zhai, K. Kikuchi, S. Redford, A. Prindle, J. Liu, S. Greenfield, A. M. Walczak, J. Garcia-Ojalvo, A. Mugler, and G. M. Süel. Signal percolation within a bacterial community. Cell Systems 7(2):137-145, 2018. [paper] [press release] [journal cover]
36. A. Mugler and S. Fancher. Stochastic modeling of gene expression, protein modification, and polymerization. Quantitative Biology: Theory, Computational Methods, and Models, Ch. 28, p. 563-580, 2018. [book] [preprint]
35. S. Gupta, J. Varennes, H. C. Korswagen, and A. Mugler. Temporal precision of regulated gene expression. PLoS Computational Biology 14(6):e1006201, 2018. [paper] [preprint]
34. A. Erez, R. Vogel, A. Mugler, A. Belmonte, and G. Altan-Bonnet. Modeling of cytometry data in logarithmic space: When is a bimodal distribution not bimodal? Cytometry A 93(6):611-619, 2018. [paper] [preprint]
2017
33. J. Varennes, S. Fancher, B. Han, and A. Mugler. Emergent versus individual-based multicellular chemotaxis. Physical Review Letters 119:188101, 2017. [paper] [press release] [preprint]
32. X. Shao, A. Mugler, J. Kim, H. J. Jeong, B. Levin, and I. Nemenman. Growth of bacteria in 3-d colonies. PLoS Computational Biology 13(7):e1005679, 2017. [paper] [preprint]
31. G. D. Potter, T. A. Byrd, A. Mugler, and B. Sun. Dynamic sampling and information encoding in biochemical networks. Biophysical Journal 112(4):795–804, 2017. [paper] [preprint]
30. S. Fancher and A. Mugler. Fundamental limits to collective concentration sensing in cell populations. Physical Review Letters (Editor's Suggestion) 118:078101, 2017. [paper] [synopsis] [press release] [preprint]
2016
29. G. D. Potter*, T. A. Byrd*, A. Mugler, and B. Sun (*equal contributors). Communication shapes sensory response in multicellular networks. Proceedings of the National Academy of Sciences, USA, 113(37):10334–10339, 2016. [paper] [preprint]
28. J. Varennes, B. Han, and A. Mugler. Collective chemotaxis through noisy multicellular gradient sensing. Biophysical Journal 111(3):640-649, 2016. [paper] [video] [preprint]
27. T. Smith*, S. Fancher*, A. Levchenko, I. Nemenman, and A. Mugler (*equal contributors). Role of spatial averaging in multicellular gradient sensing. Physical Biology 13(3):035004, 2016. [paper] [preprint]
26. E. Roob III*, N. Trendel*, P. R. ten Wolde, and A. Mugler (*equal contributors). Cooperative clustering digitizes biochemical signaling and enhances its fidelity. Biophysical Journal 110(7):1661-1669, 2016. [paper] [preprint]
25. A. Mugler*, M. Kittisopikul*, L. Hayden, J. Liu, C. H. Wiggins, G. M. Suel, and A. M. Walczak (*equal contributors). Noise expands the response range of the Bacillus subtilis competence circuit. PLoS Computational Biology 12(3):e1004793, 2016. [paper] [preprint]
24. J. Varennes and A. Mugler. Sense and sensitivity: physical limits to multicellular sensing, migration and drug response. Molecular Pharmaceutics 13(7):2224–2232, 2016. [paper] [preprint]
23. A. Mugler, A. Levchenko, and I. Nemenman. Limits to the precision of gradient sensing with spatial communication and temporal integration. Proceedings of the National Academy of Sciences, USA, 13(6):E689-E695, 2016. [paper] [commentary] [press release] [preprint]
22. D. Ellison*, A. Mugler*, M. Brennan*, S. H. Lee, R. Huebner, E. Shamir, L. A. Woo, J. Kim, P. Amar, I. Nemenman, A. J. Ewald, and A. Levchenko (*equal contributors). Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis. Proceedings of the National Academy of Sciences, USA, 13(6):E679-E688, 2016. [paper] [commentary] [press release] [preprint]
21. P. R. ten Wolde, N. B. Becker, T. E. Ouldridge, and A. Mugler. Fundamental limits to cellular sensing. Journal of Statistical Physics, 162:1395-1424, 2016. [paper] [preprint]
20. K. Yehl, A. Mugler, S. Vivek, Y. Liu, Y. Zhang, M. Fan, E. R. Weeks, and K. Salaita. High-speed DNA-based rolling motors powered by RNase H. Nature Nanotechnology, 11:184-190, 2016. [paper] [press release]
2015
19. N. B. Becker, A. Mugler, and P. R. ten Wolde. Optimal prediction by cellular signaling networks. Physical Review Letters, 115:258103, 2015. [paper] [preprint]
2014
18. M. Wehrens, P. R. ten Wolde, and A. Mugler. Positive feedback can lead to dynamic nanometer-scale clustering on cell membranes. Journal of Chemical Physics, 141:205102, 2014. [paper] [preprint]
17. A. Mugler, S. J. Tans, and A. Mashaghi. Circuit topology of self-interacting chains: implications for folding and unfolding dynamics. Physical Chemistry Chemical Physics, 16(41):22537-22544, 2014. [paper]
16. P. R. ten Wolde and A. Mugler. Importance of crowding in signaling, genetic, and metabolic networks. International Review of Cell and Molecular Biology, 307:419-442, 2014. [paper] [preprint]
2013
15. A. Mugler, F. Tostevin, and P. R. ten Wolde. Spatial partitioning enhances the reliability of biochemical signaling. Proceedings of the National Academy of Sciences, USA, 110(15):5927-5932, 2013. [paper] [preprint]
14. A. Mugler and P. R. ten Wolde. The macroscopic effects of microscopic heterogeneity in cell signaling. Advances in Chemical Physics, 153:373-396, 2013. [paper] [preprint]
2012
13. W. de Ronde, P. R. ten Wolde, and A. Mugler. Protein logic: a statistical mechanical study of signal integration at the single-molecule level. Biophysical Journal, 103(5):1097-1107, 2012. [paper] [preprint]
12. A. Mugler, A. G. Bailey, K. Takahashi, and P. R. ten Wolde. Membrane clustering and the role of rebinding in biochemical signaling. Biophysical Journal, 102(5):1069-1078, 2012. [paper] [preprint]
11. A. M. Walczak, A. Mugler, and C. H. Wiggins. Analytic methods for modeling stochastic regulatory networks. Methods in Molecular Biology, 880:273-322, 2012. [paper] [preprint]
2011
10. A. Mugler, B. Grinshpun, R. Franks, and C. H. Wiggins. Statistical method for revealing form-function relations in biological networks. Proceedings of the National Academy of Sciences, USA, 108(2):446-451, 2011. [paper] [preprint]
2010
9. A. Mugler, A. M. Walczak, and C. H. Wiggins. Information-optimal transcriptional response to oscillatory driving. Physical Review Letters, 105:058101, 2010. [paper] [preprint]
8. R. Ginoza and A. Mugler. Network motifs come in sets: correlations in the randomization process. Physical Review E, 82:011921, 2010. [paper] [preprint]
2009
7. A. Mugler, A. M. Walczak, and C. H. Wiggins. Spectral solutions to stochastic models of gene expression with bursts and regulation. Physical Review E, 80:041921, 2009. [paper] [preprint]
6. W. H. de Ronde*, B. C. Daniels*, A. Mugler*, N. A. Sinitsyn, and I. Nemenman (*equal contributors). Mesoscopic statistical properties of multistep enzyme-mediated reactions. IET Systems Biology, 3(5):429-437, 2009. [paper] [preprint]
5. A. Mugler, E. Ziv, I. Nemenman, and C. H. Wiggins. Quantifying evolvability in small biological networks. IET Systems Biology, 3(5):379-387, 2009. [paper] [preprint]
4. A. M. Walczak, A. Mugler, and C. H. Wiggins. A stochastic spectral analysis of transcriptional regulatory cascades. Proceedings of the National Academy of Sciences, USA, 106(16):6529-6534, 2009. [paper] [preprint]
2008
3. A. Mugler, E. Ziv, I. Nemenman, and C. H. Wiggins. Serially-regulated biological networks fully realise a constrained set of functions. IET Systems Biology, 2(5):313-322, 2008. [paper] [preprint]
2005
2. T. D. Donnelly, J. Hogan, A. Mugler, M. Schubmehl, N. Schommer, A. J. Bernoff, S. Dasnurkar, and T. Ditmire. Using ultrasonic atomization to produce an aerosol of micron-scale particles. Review of Scientific Instruments, 76:113301, 2005. [paper]
2004
1. T. D. Donnelly, J. Hogan, A. Mugler, N. Schommer, M. Schubmehl, A. J. Bernoff, and B. Forrest. An experimental study of micron-scale droplet aerosols produced via ultrasonic atomization. Physics of Fluids, 16(8):2843, 2004. [paper]