ArticleScientific reports2015
Error-based extraction of states and energy landscapes from experimental single-molecule time-series.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Integrating spatial and chemical information enhances differentiation of non-alcoholic steatohepatitis states in Raman imaging.Scientific reports · 2025Article
- An encompassed representation of timescale hierarchies in first-order reaction network.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Single-molecule FRET methods to study the dynamics of proteins at work.Current opinion in biomedical engineering · 2019Article
- Phosphorylation Induces Conformational Rigidity at the C-Terminal Domain of AMPA Receptors.The journal of physical chemistry. B · 2019Article
- A Statistical Physics Characterization of the Complex Systems Dynamics: Quantifying Complexity from Spatio-Temporal Interactions.Scientific reports · 2016Article
- ATP hydrolysis assists phosphate release and promotes reaction ordering in F1-ATPase.Nature communications · 2015Article
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Authors and funding
5 authors.
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Abstract
Characterization of states, the essential components of the underlying energy landscapes, is one of the most intriguing subjects in single-molecule (SM) experiments due to the existence of noise inherent to the measurements. Here we present a method to extract the underlying state sequences from experimental SM time-series. Taking into account empirical error and the finite sampling of the time-series, the method extracts a steady-state network which provides an approximation of the underlying effective free energy landscape. The core of the method is the application of rate-distortion theory from information theory, allowing the individual data points to be assigned to multiple states simultaneously. We demonstrate the method's proficiency in its application to simulated trajectories as well as to experimental SM fluorescence resonance energy transfer (FRET) trajectories obtained from isolated agonist binding domains of the AMPA receptor, an ionotropic glutamate receptor that is prevalent in the central nervous system.
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