Simulated data sets for single molecule kinetics: some limitations and complications of data analysis

Jue Shi, Ari Gafni, Duncan Steel*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

Abstract

When the fluorescence intensity of a chromophore attached to or bound in an enzyme relates to a specific reactive step in the enzymatic reaction, a single molecule fluorescence study of the process reveals a time sequence in the fluorescence emission that can be analyzed to derive kinetic and mechanistic information. Reports of various experimental results and corresponding theoretical studies have provided a basis for interpreting these data and understanding the methodology. We have found it useful to parallel experiments with Monte Carlo simulations of potential models hypothesized to describe the reaction kinetics. The simulations can be adapted to include experimental limitations, such as limited data sets, and complexities such as dynamic disorder, where reaction rates appear to change over time. By using models that are known a priori, the simulations reveal some of the challenges of interpreting finite single-molecule data sets by employing various statistical signatures that have been identified.
Original languageEnglish
Pages (from-to)633–645
Number of pages13
JournalEuropean Biophysics Journal
Volume35
Issue number8
Early online date5 May 2006
DOIs
Publication statusPublished - Oct 2006

Fingerprint

Dive into the research topics of 'Simulated data sets for single molecule kinetics: some limitations and complications of data analysis'. Together they form a unique fingerprint.

Cite this