A Comprehensive Web-based Platform For Domain-Specific
Biological Models

D 2013

A Comprehensive Web-based Platform For Domain-Specific Biological Models

KLEMENT, Matej; David ŠAFRÁNEK; Tadeáš DĚD; Aleš PEJZNOCH; Ladislav NEDBAL et. al.

Základní údaje

Originální název

A Comprehensive Web-based Platform For Domain-Specific Biological Models

Autoři

KLEMENT, Matej (703 Slovensko, domácí); David ŠAFRÁNEK (203 Česká republika, garant, domácí); Tadeáš DĚD (203 Česká republika, domácí); Aleš PEJZNOCH (203 Česká republika, domácí); Ladislav NEDBAL (203 Česká republika); Ralf STEUER (276 Německo); Jan ČERVENÝ (203 Česká republika) a Stefan MUELLER (40 Rakousko)

Vydání

Neuveden, Proceedings of the fourth International Workshop on Interactions between Computer Science and Biology (CS2Bio'13), od s. 61-67, 7 s. 2013

Nakladatel

Elsevier

Další údaje

Jazyk

angličtina

Typ výsledku

Stať ve sborníku

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Česká republika

Utajení

není předmětem státního či obchodního tajemství

Forma vydání

elektronická verze "online"

Odkazy

URL

Kód RIV

RIV/00216224:14330/13:00068771

Organizační jednotka

Fakulta informatiky

ISSN

DOI

http://dx.doi.org/10.1016/j.entcs.2013.11.006

UT WoS

000216920700006

Klíčová slova anglicky

systems biology; modelling; mode repository; database

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 24. 4. 2014 18:17, RNDr. Pavel Šmerk, Ph.D.

Anotace

V originále

A Comprehensive Modeling Platform, that is, a general framework for public sharing, annotation, and visualization of domain-specific biological models, is presented. For a selected organism, the framework is instantiated as a web-based application which allows to capture several aspects of biological models represented as biochemical reaction networks or ordinary differential equations. The key feature of the instantiation for a given organism relies on mapping kinetic models to a precise textual and a schematic graphical representation of the related biological knowledge, thereby supporting the systems biological view of the modeled organism. Besides model repository and annotation, the platform includes basic model analysis features such as simulation and static analysis.

Návaznosti

EE2.3.20.0256, projekt VaV

Název: Vytvoření výzkumného týmu a mezinárodního konzorcia pro počítačový model buňky sinice

Citovat

KLEMENT, Matej; David ŠAFRÁNEK; Tadeáš DĚD; Aleš PEJZNOCH; Ladislav NEDBAL; Ralf STEUER; Jan ČERVENÝ a Stefan MUELLER. A Comprehensive Web-based Platform For Domain-Specific Biological Models. Online. In Proceedings of the fourth International Workshop on Interactions between Computer Science and Biology (CS2Bio'13). Neuveden: Elsevier, 2013, s. 61-67. ISSN 1571-0661. Dostupné z: https://dx.doi.org/10.1016/j.entcs.2013.11.006.

@inproceedings{1114457,
   author = {Klement, Matej and Šafránek, David and Děd, Tadeáš and Pejznoch, Aleš and Nedbal, Ladislav and Steuer, Ralf and Červený, Jan and Mueller, Stefan},
   address = {Neuveden},
   booktitle = {Proceedings of the fourth International Workshop on Interactions between Computer Science and Biology (CS2Bio'13)},
   doi = {http://dx.doi.org/10.1016/j.entcs.2013.11.006},
   keywords = {systems biology; modelling; mode repository; database},
   howpublished = {elektronická verze "online"},
   language = {eng},
   location = {Neuveden},
   pages = {61-67},
   publisher = {Elsevier},
   title = {A Comprehensive Web-based Platform For Domain-Specific Biological Models},
   url = {http://dx.doi.org/10.1016/j.entcs.2013.11.006},
   year = {2013}
}

TY  - CONF
ID  - 1114457
AU  - Klement, Matej - Šafránek, David - Děd, Tadeáš - Pejznoch, Aleš - Nedbal, Ladislav - Steuer, Ralf - Červený, Jan - Mueller, Stefan
PY  - 2013
TI  - A Comprehensive Web-based Platform For Domain-Specific Biological Models
PB  - Elsevier
CY  - Neuveden
KW  - systems biology
KW  - modelling
KW  - mode repository
KW  - database
UR  - http://dx.doi.org/10.1016/j.entcs.2013.11.006
L2  - http://dx.doi.org/10.1016/j.entcs.2013.11.006
N2  - A Comprehensive Modeling Platform, that is, a general framework for public sharing, annotation, and visualization of domain-specific biological models, is presented. For a selected organism, the framework is instantiated as a web-based application which allows to capture several aspects of biological models represented as biochemical reaction networks or ordinary differential equations. The key feature of the instantiation for a given organism relies on mapping kinetic models to a precise textual and a schematic graphical representation of the related biological knowledge, thereby supporting the systems biological view of the modeled organism. Besides model repository and annotation, the platform includes basic model analysis features such as simulation and static analysis.
ER  -

KLEMENT, Matej; David ŠAFRÁNEK; Tadeáš DĚD; Aleš PEJZNOCH; Ladislav NEDBAL; Ralf STEUER; Jan ČERVENÝ a Stefan MUELLER. A Comprehensive Web-based Platform For Domain-Specific Biological Models. Online. In \textit{Proceedings of the fourth International Workshop on Interactions between Computer Science and Biology (CS2Bio'13)}. Neuveden: Elsevier, 2013, s.~61-67. ISSN~1571-0661. Dostupné z: https://dx.doi.org/10.1016/j.entcs.2013.11.006.

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