Visualizing Stable Features in Live Cell Nucleus for Evaluation
of the Cell Global Motion Compensation

J 2014

Visualizing Stable Features in Live Cell Nucleus for Evaluation of the Cell Global Motion Compensation

SOROKIN, Dmitry, Jana SUCHÁNKOVÁ, Eva BÁRTOVÁ a Pavel MATULA

Základní údaje

Originální název

Visualizing Stable Features in Live Cell Nucleus for Evaluation of the Cell Global Motion Compensation

Autoři

SOROKIN, Dmitry (643 Rusko, garant, domácí), Jana SUCHÁNKOVÁ (203 Česká republika), Eva BÁRTOVÁ (203 Česká republika) a Pavel MATULA (203 Česká republika, domácí)

Vydání

Folia biologica, Univerzita Karlova, 2014, 0015-5500

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

Genetika a molekulární biologie

Stát vydavatele

Česká republika

Utajení

není předmětem státního či obchodního tajemství

Impakt faktor

Impact factor: 1.000

Kód RIV

RIV/00216224:14330/14:00073848

Organizační jednotka

Fakulta informatiky

UT WoS

000343275800007

Klíčová slova anglicky

cell global motion compensation; UV laser bleaching image registration; stable features; algorithm evaluation

Štítky

CBIA, cbia-web

Změněno: 27. 4. 2015 04:11, RNDr. Pavel Šmerk, Ph.D.

Anotace

V originále

The compensation of cell motion is an important step in single-particle tracking analysis of live cells. This step is required in most of the cases, since the movement of subcellular foci is superimposed by the movement and deformation of the cell, while only the local motion of the foci is important to be analysed. The cell motion and deformation compensation is usually performed by means of image registration. There are a number of approaches with different models and properties presented in the literature that perform cell image registration. However, the evaluation of the registration approach quality on real data is a tricky problem due to the fact that some stable features in the images with a priori no local motion are needed. In this paper we propose a methodology for creating live cell nuclei image sequences with stable features imposed. The features are defined using the regions of fluorescence bleaching invoked by the UV laser. Data with different deformations are acquired and can be used for evaluation of the cell image registration methods. Along with that, we describe an image analysis technique and a metric that can characterize the quality of the method quantitatively. The proposed methodology allows building a ground truth dataset for testing and thoroughly evaluating cell image registration methods.

Návaznosti

CZ.1.07/2.3.00/30.0030, interní kód MU

Název: Rozvoj lidských zdrojů pro oblast buněčné biologie

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Rozvoj lidských zdrojů pro oblast buněčné biologie, 2.3 Lidské zdroje ve výzkumu a vývoji

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, Jana SUCHÁNKOVÁ, Eva BÁRTOVÁ a Pavel MATULA. Visualizing Stable Features in Live Cell Nucleus for Evaluation of the Cell Global Motion Compensation. Folia biologica. Univerzita Karlova, 2014, roč. 60, (Suppl 1), s. 45-49. ISSN 0015-5500.

@article{1197310,
   author = {Sorokin, Dmitry and Suchánková, Jana and Bártová, Eva and Matula, Pavel},
   article_number = {(Suppl 1)},
   keywords = {cell global motion compensation; UV laser bleaching image registration; stable features; algorithm evaluation},
   language = {eng},
   issn = {0015-5500},
   journal = {Folia biologica},
   title = {Visualizing Stable Features in Live Cell Nucleus for Evaluation of the Cell Global Motion Compensation},
   volume = {60},
   year = {2014}
}

TY  - JOUR
ID  - 1197310
AU  - Sorokin, Dmitry - Suchánková, Jana - Bártová, Eva - Matula, Pavel
PY  - 2014
TI  - Visualizing Stable Features in Live Cell Nucleus for Evaluation of the Cell Global Motion Compensation
JF  - Folia biologica
VL  - 60
IS  - (Suppl 1)
SP  - 45-49
EP  - 45-49
PB  - Univerzita Karlova
SN  - 00155500
KW  - cell global motion compensation
KW  - UV laser bleaching image registration
KW  - stable features
KW  - algorithm evaluation
N2  - The compensation of cell motion is an important step in single-particle tracking analysis of live cells. This step is required in most of the cases, since the movement of subcellular foci is superimposed by the movement and deformation of the cell, while only the local motion of the foci is important to be analysed. The cell motion and deformation compensation is usually performed by means of image registration. There are a number of approaches with different models and properties presented in the literature that perform cell image registration. However, the evaluation of the registration approach quality on real data is a tricky problem due to the fact that some stable features in the images with a priori no local motion are needed. In this paper we propose a methodology for creating live cell nuclei image sequences with stable features imposed. The features are defined using the regions of fluorescence bleaching invoked by the UV laser. Data with different deformations are acquired and can be used for evaluation of the cell image registration methods. Along with that, we describe an image analysis technique and a metric that can characterize the quality of the method quantitatively. The proposed methodology allows building a ground truth dataset for testing and thoroughly evaluating cell image registration methods.
ER  -

SOROKIN, Dmitry, Jana SUCHÁNKOVÁ, Eva BÁRTOVÁ a Pavel MATULA. Visualizing Stable Features in Live Cell Nucleus for Evaluation of the Cell Global Motion Compensation. \textit{Folia biologica}. Univerzita Karlova, 2014, roč.~60, (Suppl 1), s.~45-49. ISSN~0015-5500.

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