Literature DB >> 22957556

A general theory of DNA-mediated and other valence-limited colloidal interactions.

Patrick Varilly1, Stefano Angioletti-Uberti, Bortolo M Mognetti, Daan Frenkel.   

Abstract

We present a general theory for predicting the interaction potentials between DNA-coated colloids, and more broadly, any particles that interact via valence-limited ligand-receptor binding. Our theory correctly incorporates the configurational and combinatorial entropic factors that play a key role in valence-limited interactions. By rigorously enforcing self-consistency, it achieves near-quantitative accuracy with respect to detailed Monte Carlo calculations. With suitable approximations and in particular geometries, our theory reduces to previous successful treatments, which are now united in a common and extensible framework. We expect our tools to be useful to other researchers investigating ligand-mediated interactions. A complete and well-documented Python implementation is freely available at http://github.com/patvarilly/DNACC.

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Year:  2012        PMID: 22957556     DOI: 10.1063/1.4748100

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  18 in total

1.  Designing DNA-grafted particles that self-assemble into desired crystalline structures using the genetic algorithm.

Authors:  Babji Srinivasan; Thi Vo; Yugang Zhang; Oleg Gang; Sanat Kumar; Venkat Venkatasubramanian
Journal:  Proc Natl Acad Sci U S A       Date:  2013-10-28       Impact factor: 11.205

2.  Assembly of multi-flavored two-dimensional colloidal crystals.

Authors:  Nathan A Mahynski; Hasan Zerze; Harold W Hatch; Vincent K Shen; Jeetain Mittal
Journal:  Soft Matter       Date:  2017-08-16       Impact factor: 3.679

3.  Stoichiometric control of DNA-grafted colloid self-assembly.

Authors:  Thi Vo; Venkat Venkatasubramanian; Sanat Kumar; Babji Srinivasan; Suchetan Pal; Yugang Zhang; Oleg Gang
Journal:  Proc Natl Acad Sci U S A       Date:  2015-04-06       Impact factor: 11.205

Review 4.  Binding equilibrium and kinetics of membrane-anchored receptors and ligands in cell adhesion: Insights from computational model systems and theory.

Authors:  Thomas R Weikl; Jinglei Hu; Guang-Kui Xu; Reinhard Lipowsky
Journal:  Cell Adh Migr       Date:  2016-06-13       Impact factor: 3.405

5.  DNA self-organization controls valence in programmable colloid design.

Authors:  Angus McMullen; Sascha Hilgenfeldt; Jasna Brujic
Journal:  Proc Natl Acad Sci U S A       Date:  2021-11-16       Impact factor: 11.205

6.  Direct visualization of superselective colloid-surface binding mediated by multivalent interactions.

Authors:  Christine Linne; Daniele Visco; Stefano Angioletti-Uberti; Liedewij Laan; Daniela J Kraft
Journal:  Proc Natl Acad Sci U S A       Date:  2021-09-07       Impact factor: 11.205

7.  Thermodynamic analysis of multivalent binding of functionalized nanoparticles to membrane surface reveals the importance of membrane entropy and nanoparticle entropy in adhesion of flexible nanoparticles.

Authors:  Samaneh Farokhirad; Ryan P Bradley; Ravi Radhakrishnan
Journal:  Soft Matter       Date:  2019-10-31       Impact factor: 3.679

8.  Avidity and surface mobility in multivalent ligand-receptor binding.

Authors:  Simon Merminod; John R Edison; Huang Fang; Michael F Hagan; W Benjamin Rogers
Journal:  Nanoscale       Date:  2021-07-14       Impact factor: 8.307

9.  Volume and porosity thermal regulation in lipid mesophases by coupling mobile ligands to soft membranes.

Authors:  Lucia Parolini; Bortolo M Mognetti; Jurij Kotar; Erika Eiser; Pietro Cicuta; Lorenzo Di Michele
Journal:  Nat Commun       Date:  2015-01-07       Impact factor: 14.919

10.  Influence of length and flexibility of spacers on the binding affinity of divalent ligands.

Authors:  Susanne Liese; Roland R Netz
Journal:  Beilstein J Org Chem       Date:  2015-05-15       Impact factor: 2.883

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