Studying molecular motor-based cargo transport

What is real and what is noise?

Dmitri Y. Petrov, Roop Mallik, George Shubeita, Michael Vershinin, Steven P. Gross, Clare C. Yu

    Research output: Contribution to journalArticle

    Abstract

    Noise is a major problem in analyzing tracking data of cargos moved by molecular motors. We use Bayesian statistics to incorporate what is known about the noise in parsing the trajectory of a cargo into a series of constant velocity segments. Tracks with just noise and no underlying motion are fit with constant velocity segments to produce a calibration curve of fit quality versus average segment duration. Fits to tracks of moving cargos are compared to the calibration curves with similar noise. The fit with the optimum number of constant velocity states has the least number of segments needed to match the fit quality of the calibration curve. We have tested this approach using tracks with known underlying motion generated by computer simulations and with a specially designed in vitro experiment. We present the results of using this parsing approach to analyze transport of lipid droplets in Drosophila embryos.

    Original languageEnglish (US)
    Pages (from-to)2953-2963
    Number of pages11
    JournalBiophysical Journal
    Volume92
    Issue number8
    DOIs
    StatePublished - Jan 1 2007

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    Noise
    Calibration
    Computer Simulation
    Drosophila
    Embryonic Structures

    ASJC Scopus subject areas

    • Biophysics

    Cite this

    Petrov, D. Y., Mallik, R., Shubeita, G., Vershinin, M., Gross, S. P., & Yu, C. C. (2007). Studying molecular motor-based cargo transport: What is real and what is noise? Biophysical Journal, 92(8), 2953-2963. https://doi.org/10.1529/biophysj.106.097253

    Studying molecular motor-based cargo transport : What is real and what is noise? / Petrov, Dmitri Y.; Mallik, Roop; Shubeita, George; Vershinin, Michael; Gross, Steven P.; Yu, Clare C.

    In: Biophysical Journal, Vol. 92, No. 8, 01.01.2007, p. 2953-2963.

    Research output: Contribution to journalArticle

    Petrov, DY, Mallik, R, Shubeita, G, Vershinin, M, Gross, SP & Yu, CC 2007, 'Studying molecular motor-based cargo transport: What is real and what is noise?', Biophysical Journal, vol. 92, no. 8, pp. 2953-2963. https://doi.org/10.1529/biophysj.106.097253
    Petrov DY, Mallik R, Shubeita G, Vershinin M, Gross SP, Yu CC. Studying molecular motor-based cargo transport: What is real and what is noise? Biophysical Journal. 2007 Jan 1;92(8):2953-2963. https://doi.org/10.1529/biophysj.106.097253
    Petrov, Dmitri Y. ; Mallik, Roop ; Shubeita, George ; Vershinin, Michael ; Gross, Steven P. ; Yu, Clare C. / Studying molecular motor-based cargo transport : What is real and what is noise?. In: Biophysical Journal. 2007 ; Vol. 92, No. 8. pp. 2953-2963.
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