On Proper Simulation of Chromatin Structure in Static Images As
Well As in Time-Lapse Sequences in Fluorescence Microscopy

D 2015

On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy

SVOBODA, David, Vladimír ULMAN a Igor PETERLÍK

Základní údaje

Originální název

On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy

Autoři

SVOBODA, David (203 Česká republika, garant, domácí), Vladimír ULMAN (203 Česká republika, domácí) a Igor PETERLÍK (703 Slovensko, domácí)

Vydání

Stoughton (WI, USA), Proceedings of 2015 IEEE International Symposium on Biomedical Imaging, od s. 712-716, 5 s. 2015

Nakladatel

Engineering in Medicine and Biology Society

Další údaje

Jazyk

angličtina

Typ výsledku

Stať ve sborníku

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Forma vydání

paměťový nosič (CD, DVD, flash disk)

Kód RIV

RIV/00216224:14330/15:00080650

Organizační jednotka

Fakulta informatiky

ISBN

978-1-4799-2374-8

ISSN

DOI

http://dx.doi.org/10.1109/ISBI.2015.7163972

UT WoS

000380546000171

Klíčová slova anglicky

Simulation; Synthetic cell; Chromatin structure; Nucleus deformation; Linear elasticity; FEM

Štítky

CBIA, cbia-web, firank_B

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 16. 7. 2019 11:11, doc. RNDr. David Svoboda, Ph.D.

Anotace

V originále

In fluorescence microscopy, where the benchmark datasets for validating the various image analysis methods are difficult to obtain, a great demand is either for manually annotated real image data or for computer generated ones. In the last two decades, the latter case has become more and more accessible due to an increasing computer capabilities. However, the development of elaborate models, especially in the field of fluorescence microscopy imaging, is less progressive. In this paper, we propose a novel approach, based on well established concepts, to properly imitate the structure of chromatin inside the cell nucleus as well as its dynamics. The performance of the approach was quantitatively evaluated against the real data. The results show that the produced images are sufficiently plausible and visually resemble their real counter parts, both for fixed and living cells.

Návaznosti

GA14-22461S, projekt VaV

Název: Vývoj a studium metod pro kvantifikaci živých buněk (Akronym: Live Cell Quantification)

Investor: Grantová agentura ČR, Development and Study of Methods for Live Cell Quantification

Citovat

SVOBODA, David, Vladimír ULMAN a Igor PETERLÍK. On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy. In Proceedings of 2015 IEEE International Symposium on Biomedical Imaging. Stoughton (WI, USA): Engineering in Medicine and Biology Society, 2015, s. 712-716. ISBN 978-1-4799-2374-8. Dostupné z: https://dx.doi.org/10.1109/ISBI.2015.7163972.

@inproceedings{1218636,
   author = {Svoboda, David and Ulman, Vladimír and Peterlík, Igor},
   address = {Stoughton (WI, USA)},
   booktitle = {Proceedings of 2015 IEEE International Symposium on Biomedical Imaging},
   doi = {http://dx.doi.org/10.1109/ISBI.2015.7163972},
   keywords = {Simulation; Synthetic cell; Chromatin structure; Nucleus deformation; Linear elasticity; FEM},
   howpublished = {paměťový nosič},
   language = {eng},
   location = {Stoughton (WI, USA)},
   isbn = {978-1-4799-2374-8},
   pages = {712-716},
   publisher = {Engineering in Medicine and Biology Society},
   title = {On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy},
   year = {2015}
}

TY  - JOUR
ID  - 1218636
AU  - Svoboda, David - Ulman, Vladimír - Peterlík, Igor
PY  - 2015
TI  - On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy
PB  - Engineering in Medicine and Biology Society
CY  - Stoughton (WI, USA)
SN  - 9781479923748
KW  - Simulation
KW  - Synthetic cell
KW  - Chromatin structure
KW  - Nucleus deformation
KW  - Linear elasticity
KW  - FEM
N2  - In fluorescence microscopy, where the benchmark datasets for validating the various image analysis methods are difficult to obtain, a great demand is either for manually annotated real image data or for computer generated ones. In the last two decades, the latter case has become more and more accessible due to an increasing computer capabilities. However, the development of elaborate models, especially in the field of fluorescence microscopy imaging, is less progressive. In this paper, we propose a novel approach, based on well established concepts, to properly imitate the structure of chromatin inside the cell nucleus as well as its dynamics. The performance of the approach was quantitatively evaluated against the real data. The results show that the produced images are sufficiently plausible and visually resemble their real counter parts, both for fixed and living cells.
ER  -

SVOBODA, David, Vladimír ULMAN a Igor PETERLÍK. On Proper Simulation of Chromatin Structure in Static Images As Well As in Time-Lapse Sequences in Fluorescence Microscopy. In \textit{Proceedings of 2015 IEEE International Symposium on Biomedical Imaging}. Stoughton (WI, USA): Engineering in Medicine and Biology Society, 2015, s.~712-716. ISBN~978-1-4799-2374-8. Dostupné z: https://dx.doi.org/10.1109/ISBI.2015.7163972.

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