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Polish Academy of Sciences

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Marco Capitanio

University of Florence (IT)

Recent publications
1.  Sosa-Costa A., Piechocka I.K., Gardini L., Pavone F.S., Capitanio M., Garcia-Parajo M.F., Manzo C., PLANT: A Method for Detecting Changes of Slope in Noisy Trajectories, BIOPHYSICAL JOURNAL, ISSN: 0006-3495, DOI: 10.1016/j.bpj.2018.04.006, Vol.114, No.9, pp.2044-2051, 2018

Abstract:
Time traces obtained from a variety of biophysical experiments contain valuable information on underlying processes occurring at the molecular level. Accurate quantification of these data can help explain the details of the complex dynamics of biological systems. Here, we describe PLANT (Piecewise Linear Approximation of Noisy Trajectories), a segmentation algorithm that allows the reconstruction of time-trace data with constant noise as consecutive straight lines, from which changes of slopes and their respective durations can be extracted. We present a general description of the algorithm and perform extensive simulations to characterize its strengths and limitations, providing a rationale for the performance of the algorithm in the different conditions tested. We further apply the algorithm to experimental data obtained from tracking the centroid position of lymphocytes migrating under the effect of a laminar flow and from single myosin molecules interacting with actin in a dual-trap force-clamp configuration.

Keywords:
TETHERED PARTICLE MOTION, CHANGE-POINT DETECTION, OPTICAL TWEEZERS, CELL-ADHESION, UNKNOWN POINT, SINGLE, MYOSIN, MODEL, MIGRATION, TRACKING

Affiliations:
Sosa-Costa A. - Barcelona Institute of Science and Technology (ES)
Piechocka I.K. - IPPT PAN
Gardini L. - National Institute of Optics–National Research Council (IT)
Pavone F.S. - University of Florence (IT)
Capitanio M. - University of Florence (IT)
Garcia-Parajo M.F. - Barcelona Institute of Science and Technology (ES)
Manzo C. - ICFO, Institut de Ciències Fotòniques (ES)

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