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For: Skoge M, Meir Y, Wingreen NS. Dynamics of cooperativity in chemical sensing among cell-surface receptors. Phys Rev Lett 2011;107:178101. [PMID: 22107586 DOI: 10.1103/physrevlett.107.178101] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2011] [Indexed: 05/31/2023]
Number Cited by Other Article(s)
1
Wang W, Camley BA. Limits on the accuracy of contact inhibition of locomotion. Phys Rev E 2024;109:054408. [PMID: 38907435 PMCID: PMC11193850 DOI: 10.1103/physreve.109.054408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2023] [Accepted: 03/25/2024] [Indexed: 06/24/2024]
2
How does an organism extract relevant information from transcription factor concentrations? Biochem Soc Trans 2022;50:1365-1376. [DOI: 10.1042/bst20220333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2022] [Revised: 08/16/2022] [Accepted: 08/17/2022] [Indexed: 11/17/2022]
3
Kirby D, Rothschild J, Smart M, Zilman A. Pleiotropy enables specific and accurate signaling in the presence of ligand cross talk. Phys Rev E 2021;103:042401. [PMID: 34005921 DOI: 10.1103/physreve.103.042401] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Accepted: 02/22/2021] [Indexed: 12/27/2022]
4
Malaguti G, ten Wolde PR. Theory for the optimal detection of time-varying signals in cellular sensing systems. eLife 2021;10:e62574. [PMID: 33594978 PMCID: PMC7946427 DOI: 10.7554/elife.62574] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2020] [Accepted: 02/12/2021] [Indexed: 11/29/2022]  Open
5
Vennettilli M, Erez A, Mugler A. Multicellular sensing at a feedback-induced critical point. Phys Rev E 2020;102:052411. [PMID: 33327087 DOI: 10.1103/physreve.102.052411] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2020] [Accepted: 10/06/2020] [Indexed: 11/07/2022]
6
Energy consumption and cooperation for optimal sensing. Nat Commun 2020;11:975. [PMID: 32080202 PMCID: PMC7033096 DOI: 10.1038/s41467-020-14806-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2019] [Accepted: 02/05/2020] [Indexed: 11/09/2022]  Open
7
Micali G, Endres RG. Maximal information transmission is compatible with ultrasensitive biological pathways. Sci Rep 2019;9:16898. [PMID: 31729454 PMCID: PMC6858467 DOI: 10.1038/s41598-019-53273-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2018] [Accepted: 10/29/2019] [Indexed: 11/16/2022]  Open
8
Byrd TA, Erez A, Vogel RM, Peterson C, Vennettilli M, Altan-Bonnet G, Mugler A. Critical slowing down in biochemical networks with feedback. Phys Rev E 2019;100:022415. [PMID: 31574667 PMCID: PMC8499154 DOI: 10.1103/physreve.100.022415] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Indexed: 06/10/2023]
9
Carballo-Pacheco M, Desponds J, Gavrilchenko T, Mayer A, Prizak R, Reddy G, Nemenman I, Mora T. Receptor crosstalk improves concentration sensing of multiple ligands. Phys Rev E 2019;99:022423. [PMID: 30934315 DOI: 10.1103/physreve.99.022423] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2018] [Indexed: 06/09/2023]
10
Precision in a rush: Trade-offs between reproducibility and steepness of the hunchback expression pattern. PLoS Comput Biol 2018;14:e1006513. [PMID: 30307984 PMCID: PMC6198997 DOI: 10.1371/journal.pcbi.1006513] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2018] [Revised: 10/23/2018] [Accepted: 09/14/2018] [Indexed: 11/19/2022]  Open
11
Namba T, Shibata T. Propagation of regulatory fluctuations induces coordinated switching of flagellar motors in chemotaxis signaling pathway of single bacteria. J Theor Biol 2018;454:367-375. [PMID: 29969599 DOI: 10.1016/j.jtbi.2018.06.023] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2018] [Revised: 06/25/2018] [Accepted: 06/27/2018] [Indexed: 01/14/2023]
12
Waite AJ, Frankel NW, Emonet T. Behavioral Variability and Phenotypic Diversity in Bacterial Chemotaxis. Annu Rev Biophys 2018;47:595-616. [PMID: 29618219 DOI: 10.1146/annurev-biophys-062215-010954] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
13
Keegstra JM, Kamino K, Anquez F, Lazova MD, Emonet T, Shimizu TS. Phenotypic diversity and temporal variability in a bacterial signaling network revealed by single-cell FRET. eLife 2017;6:e27455. [PMID: 29231170 PMCID: PMC5809149 DOI: 10.7554/elife.27455] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2017] [Accepted: 11/17/2017] [Indexed: 11/13/2022]  Open
14
Samanta S, Layek R, Kar S, Raj MK, Mukhopadhyay S, Chakraborty S. Predicting Escherichia coli's chemotactic drift under exponential gradient. Phys Rev E 2017;96:032409. [PMID: 29346905 DOI: 10.1103/physreve.96.032409] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Indexed: 06/07/2023]
15
Deshpande A, Samanta S, Das H, Layek RK. A Boolean approach to bacterial chemotaxis. ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL INTERNATIONAL CONFERENCE 2017;2016:6125-6129. [PMID: 28269650 DOI: 10.1109/embc.2016.7592126] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
16
Topologically protected modes in non-equilibrium stochastic systems. Nat Commun 2017;8:13881. [PMID: 28071644 PMCID: PMC5234070 DOI: 10.1038/ncomms13881] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2016] [Accepted: 11/08/2016] [Indexed: 12/02/2022]  Open
17
Roob E, Trendel N, Rein Ten Wolde P, Mugler A. Cooperative Clustering Digitizes Biochemical Signaling and Enhances its Fidelity. Biophys J 2016;110:1661-1669. [PMID: 27074690 DOI: 10.1016/j.bpj.2016.02.031] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2015] [Revised: 02/04/2016] [Accepted: 02/22/2016] [Indexed: 10/21/2022]  Open
18
Monti M, Wolde PRT. The accuracy of telling time via oscillatory signals. Phys Biol 2016;13:035005. [DOI: 10.1088/1478-3975/13/3/035005] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
19
Fundamental constraints on the abundances of chemotaxis proteins. Biophys J 2016;108:1293-305. [PMID: 25762341 DOI: 10.1016/j.bpj.2015.01.024] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2014] [Revised: 01/25/2015] [Accepted: 01/28/2015] [Indexed: 01/01/2023]  Open
20
Tompa P. The principle of conformational signaling. Chem Soc Rev 2016;45:4252-84. [DOI: 10.1039/c6cs00011h] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
21
Barato AC, Seifert U. Dispersion for two classes of random variables: general theory and application to inference of an external ligand concentration by a cell. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2015;92:032127. [PMID: 26465446 DOI: 10.1103/physreve.92.032127] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2015] [Indexed: 06/05/2023]
22
Yaron T, Cordova Y, Sprinzak D. Juxtacrine signaling is inherently noisy. Biophys J 2015;107:2417-24. [PMID: 25418310 DOI: 10.1016/j.bpj.2014.10.006] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2014] [Revised: 09/28/2014] [Accepted: 10/01/2014] [Indexed: 10/24/2022]  Open
23
Sevier SA, Levine H. Properties of cooperatively induced phases in sensing models. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2015;91:052707. [PMID: 26066199 DOI: 10.1103/physreve.91.052707] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2014] [Indexed: 06/04/2023]
24
Zamparo M, Chianale F, Tebaldi C, Cosentino-Lagomarsino M, Nicodemi M, Gamba A. Dynamic membrane patterning, signal localization and polarity in living cells. SOFT MATTER 2015;11:838-849. [PMID: 25563791 DOI: 10.1039/c4sm02157f] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
25
Chemodetection in fluctuating environments: receptor coupling, buffering, and antagonism. Proc Natl Acad Sci U S A 2015;112:1898-903. [PMID: 25624502 DOI: 10.1073/pnas.1420903112] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
26
Govern CC, ten Wolde PR. Energy dissipation and noise correlations in biochemical sensing. PHYSICAL REVIEW LETTERS 2014;113:258102. [PMID: 25554909 DOI: 10.1103/physrevlett.113.258102] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2014] [Indexed: 05/18/2023]
27
Haselwandter CA, Wingreen NS. The role of membrane-mediated interactions in the assembly and architecture of chemoreceptor lattices. PLoS Comput Biol 2014;10:e1003932. [PMID: 25503274 PMCID: PMC4263354 DOI: 10.1371/journal.pcbi.1003932] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2014] [Accepted: 09/22/2014] [Indexed: 01/04/2023]  Open
28
Clausznitzer D, Micali G, Neumann S, Sourjik V, Endres RG. Predicting chemical environments of bacteria from receptor signaling. PLoS Comput Biol 2014;10:e1003870. [PMID: 25340783 PMCID: PMC4207464 DOI: 10.1371/journal.pcbi.1003870] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2014] [Accepted: 08/19/2014] [Indexed: 11/19/2022]  Open
29
Hu B, Rappel WJ, Levine H. How input noise limits biochemical sensing in ultrasensitive systems. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2014;90:032702. [PMID: 25314468 PMCID: PMC4457451 DOI: 10.1103/physreve.90.032702] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2014] [Indexed: 06/04/2023]
30
Chang Q, Zuo L. The biophysical model for accuracy of cellular sensing spatial gradients of multiple chemoattractants. Phys Biol 2013;10:056014. [PMID: 24104469 DOI: 10.1088/1478-3975/10/5/056014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
31
Skoge M, Naqvi S, Meir Y, Wingreen NS. Chemical sensing by nonequilibrium cooperative receptors. PHYSICAL REVIEW LETTERS 2013;110:248102. [PMID: 25165963 PMCID: PMC4114058 DOI: 10.1103/physrevlett.110.248102] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2012] [Indexed: 05/25/2023]
32
Piasta KN, Ulliman CJ, Slivka PF, Crane BR, Falke JJ. Defining a key receptor-CheA kinase contact and elucidating its function in the membrane-bound bacterial chemosensory array: a disulfide mapping and TAM-IDS Study. Biochemistry 2013;52:3866-80. [PMID: 23668882 DOI: 10.1021/bi400385c] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
33
Spatial partitioning improves the reliability of biochemical signaling. Proc Natl Acad Sci U S A 2013;110:5927-32. [PMID: 23530194 DOI: 10.1073/pnas.1218301110] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
34
Berezhkovskii AM, Dagdug L, Vazquez MV, Lizunov VA, Zimmerberg J, Bezrukov SM. Trapping of diffusing particles by clusters of absorbing disks on a reflecting wall with disk centers on sites of a square lattice. J Chem Phys 2013;138:064105. [PMID: 23425459 DOI: 10.1063/1.4790370] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
35
Govern CC, ten Wolde PR. Fundamental limits on sensing chemical concentrations with linear biochemical networks. PHYSICAL REVIEW LETTERS 2012;109:218103. [PMID: 23215617 DOI: 10.1103/physrevlett.109.218103] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2012] [Indexed: 06/01/2023]
36
Berezhkovskii AM, Dagdug L, Lizunov VA, Zimmerberg J, Bezrukov SM. Communication: Clusters of absorbing disks on a reflecting wall: competition for diffusing particles. J Chem Phys 2012;136:211102. [PMID: 22697521 DOI: 10.1063/1.4726015] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
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