Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live
Cell Microscopy Images Using a Dynamic Elasticity Model

J 2018

Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model

SOROKIN, Dmitry, Igor PETERLÍK, Marco TEKTONIDIS, Karl ROHR, Pavel MATULA et. al.

Basic information

Original name

Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model

Authors

SOROKIN, Dmitry (643 Russian Federation, belonging to the institution), Igor PETERLÍK (703 Slovakia, belonging to the institution), Marco TEKTONIDIS (276 Germany), Karl ROHR (276 Germany) and Pavel MATULA (203 Czech Republic, belonging to the institution)

Edition

IEEE Transactions on Medical Imaging, IEEE, 2018, 0278-0062

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10201 Computer sciences, information science, bioinformatics

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 7.816

RIV identification code

RIV/00216224:14330/18:00100697

Organization unit

Faculty of Informatics

DOI

http://dx.doi.org/10.1109/TMI.2017.2734169

UT WoS

000419346900016

Keywords in English

Elasticity; Deformable models; Mathematical model; Microscopy; Dynamics; Image sequences; Image registration; Biomedical image analysis; microscopy; image sequence analysis; registration; elasticity; contour-based registration

Abstract

V originále

The analysis of the pure motion of subnuclear structures without influence of the cell nucleus motion and deformation is essential in live cell imaging. In this work, we propose a 2D contour-based image registration approach for compensation of nucleus motion and deformation in fluorescence microscopy time-lapse sequences. The proposed approach extends our previous approach which uses a static elasticity model to register cell images. Compared to that scheme, the new approach employs a dynamic elasticity model for forward simulation of nucleus motion and deformation based on the motion of its contours. The contour matching process is embedded as a constraint into the system of equations describing the elastic behavior of the nucleus. This results in better performance in terms of the registration accuracy. Our approach was successfully applied to real live cell microscopy image sequences of different types of cells including image data that was specifically designed and acquired for evaluation of cell image registration methods. An experimental comparison with existing contour-based registration methods and an intensity-based registration method has been performed. We also studied the dependence of the results on the choice of method parameters.

Links

GBP302/12/G157, research and development project

Name: Dynamika a organizace chromosomů během buněčného cyklu a při diferenciaci v normě a patologii

Investor: Czech Science Foundation

Citovat

SOROKIN, Dmitry, Igor PETERLÍK, Marco TEKTONIDIS, Karl ROHR and Pavel MATULA. Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model. IEEE Transactions on Medical Imaging. IEEE, 2018, vol. 37, No 1, p. 173-184. ISSN 0278-0062. Available from: https://dx.doi.org/10.1109/TMI.2017.2734169.

@article{1367390,
   author = {Sorokin, Dmitry and Peterlík, Igor and Tektonidis, Marco and Rohr, Karl and Matula, Pavel},
   article_number = {1},
   doi = {http://dx.doi.org/10.1109/TMI.2017.2734169},
   keywords = {Elasticity; Deformable models; Mathematical model; Microscopy; Dynamics; Image sequences; Image registration; Biomedical image analysis; microscopy; image sequence analysis; registration; elasticity; contour-based registration},
   language = {eng},
   issn = {0278-0062},
   journal = {IEEE Transactions on Medical Imaging},
   title = {Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model},
   url = {https://ieeexplore.ieee.org/document/7997923},
   volume = {37},
   year = {2018}
}

TY  - JOUR
ID  - 1367390
AU  - Sorokin, Dmitry - Peterlík, Igor - Tektonidis, Marco - Rohr, Karl - Matula, Pavel
PY  - 2018
TI  - Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model
JF  - IEEE Transactions on Medical Imaging
VL  - 37
IS  - 1
SP  - 173-184
EP  - 173-184
PB  - IEEE
SN  - 02780062
KW  - Elasticity
KW  - Deformable models
KW  - Mathematical model
KW  - Microscopy
KW  - Dynamics
KW  - Image sequences
KW  - Image registration
KW  - Biomedical image analysis
KW  - microscopy
KW  - image sequence analysis
KW  - registration
KW  - elasticity
KW  - contour-based registration
UR  - https://ieeexplore.ieee.org/document/7997923
N2  - The analysis of the pure motion of subnuclear structures without influence of the cell nucleus motion and deformation is essential in live cell imaging. In this work, we propose a 2D contour-based image registration approach for compensation of nucleus motion and deformation in fluorescence microscopy time-lapse sequences. The proposed approach extends our previous approach which uses a static elasticity model to register cell images. Compared to that scheme, the new approach employs a dynamic elasticity model for forward simulation of nucleus motion and deformation based on the motion of its contours. The contour matching process is embedded as a constraint into the system of equations describing the elastic behavior of the nucleus. This results in better performance in terms of the registration accuracy. Our approach was successfully applied to real live cell microscopy image sequences of different types of cells including image data that was specifically designed and acquired for evaluation of cell image registration methods. An experimental comparison with existing contour-based registration methods and an intensity-based registration method has been performed. We also studied the dependence of the results on the choice of method parameters.
ER  -

SOROKIN, Dmitry, Igor PETERLÍK, Marco TEKTONIDIS, Karl ROHR and Pavel MATULA. Non-rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model. \textit{IEEE Transactions on Medical Imaging}. IEEE, 2018, vol.~37, No~1, p.~173-184. ISSN~0278-0062. Available from: https://dx.doi.org/10.1109/TMI.2017.2734169.

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