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 language | English (US) |
|---|---|
| Pages (from-to) | 716-723 |
| Number of pages | 8 |
| Journal | Computer Physics Communications |
| Volume | 179 |
| Issue number | 10 |
| DOIs | |
| State | Published - Nov 15 2008 |
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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 journal › Article
}
TY - JOUR
T1 - An objective, model-independent method for detection of non-uniform steps in noisy signals
AU - Kalafut, Bennett
AU - Visscher, Koen
PY - 2008/11/15
Y1 - 2008/11/15
N2 - 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.
AB - 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.
KW - Change point analysis
KW - Single molecule biophysics
KW - Step detection
UR - http://www.scopus.com/inward/record.url?scp=53649110433&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=53649110433&partnerID=8YFLogxK
U2 - 10.1016/j.cpc.2008.06.008
DO - 10.1016/j.cpc.2008.06.008
M3 - Article
AN - SCOPUS:53649110433
VL - 179
SP - 716
EP - 723
JO - Computer Physics Communications
JF - Computer Physics Communications
SN - 0010-4655
IS - 10
ER -