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.

Základní údaje

Originální název

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

Autoři

SOROKIN, Dmitry (643 Rusko, domácí), Igor PETERLÍK (703 Slovensko, domácí), Marco TEKTONIDIS (276 Německo), Karl ROHR (276 Německo) a Pavel MATULA (203 Česká republika, domácí)

Vydání

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

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 7.816

Kód RIV

RIV/00216224:14330/18:00100697

Organizační jednotka

Fakulta informatiky

DOI

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

UT WoS

000419346900016

Klíčová slova anglicky

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

Štítky

CBIA, cbia-web, inpress

Příznaky

Recenzováno

Změněno: 9. 2. 2022 09:14, doc. RNDr. Pavel Matula, Ph.D.

Anotace

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.

Návaznosti

GBP302/12/G157, projekt VaV

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

Investor: Grantová agentura ČR, Dynamika a organizace chromosomů během buněčného cyklu a při diferenciaci v normě a patologii

Citovat

SOROKIN, Dmitry, Igor PETERLÍK, Marco TEKTONIDIS, Karl ROHR a 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, roč. 37, č. 1, s. 173-184. ISSN 0278-0062. Dostupné z: 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 a 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, roč.~37, č.~1, s.~173-184. ISSN~0278-0062. Dostupné z: https://dx.doi.org/10.1109/TMI.2017.2734169.

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