An objective, model-independent method for detection of non-uniform steps in noisy signals

Bennett Kalafut, Koen Visscher

Research output: Contribution to journalArticle

45 Citations (Scopus)

Abstract

Biophysical techniques, such as single molecule FRET, fluorescence microscopy, single ion-channel patch clamping, and optical tweezers often yield data that are noisy time series containing discrete steps. Here we present a method enabling objective identification of nonuniform steps present in such noisy data. Our method does not require the assumption of any underlying kinetic or state models and is thus particularly useful for analysis of novel and poorly understood systems. In contrast to other model-independent methods, no parameters or other information is taken from the user. We find that, at high noise levels, our method exceeds the performance of other model-independent methods in accurately locating steps in simulated noisy data.

Original languageEnglish (US)
Pages (from-to)716-723
Number of pages8
JournalComputer Physics Communications
Volume179
Issue number10
DOIs
StatePublished - Nov 15 2008

Fingerprint

Optical tweezers
Fluorescence microscopy
Time series
microscopy
fluorescence
Molecules
Kinetics
Ions
kinetics
molecules

Keywords

  • Change point analysis
  • Single molecule biophysics
  • Step detection

ASJC Scopus subject areas

  • Hardware and Architecture
  • Physics and Astronomy(all)

Cite this

An objective, model-independent method for detection of non-uniform steps in noisy signals. / Kalafut, Bennett; Visscher, Koen.

In: Computer Physics Communications, Vol. 179, No. 10, 15.11.2008, p. 716-723.

Research output: Contribution to journalArticle

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