Biochemical Space: A Framework for Systemic Annotation of Biological Models

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F67179843%3A_____%2F14%3A00438527" target="_blank" >RIV/67179843:_____/14:00438527 - isvavai.cz</a>

Výsledek na webu

<a href="http://dx.doi.org/10.1016/j.entcs.2014.06.013" target="_blank" >http://dx.doi.org/10.1016/j.entcs.2014.06.013</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1016/j.entcs.2014.06.013" target="_blank" >10.1016/j.entcs.2014.06.013</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Biochemical Space: A Framework for Systemic Annotation of Biological Models

Popis výsledku v původním jazyce

In this tool paper, we target the problem of unique annotation of organism-specific computational models presented in a public model database. In particular, we present Biochemical Space, a novel annotation methodology accompanied with a set of softwaretools that allow to create, manage and maintain the Biochemical Space content. The main idea behind is to create a transparent well-annotated reaction network of chemical entities and elemental reactions onto which the mathematical models are projected.For a given organism, the Biochemical Space represents a unifying platform for understanding of the related biological processes. The contribution of the methodology is three-fold: (i) systemic projection of models to a wellstructured biological knowledge, (ii) simplification of annotation procedure, (iii) targetting several problems such as the presence of lumped model variables, combinatorial explosion in chemical modifications of entities, and hierarchical organisation of locations of

Název v anglickém jazyce

Biochemical Space: A Framework for Systemic Annotation of Biological Models

Popis výsledku anglicky

In this tool paper, we target the problem of unique annotation of organism-specific computational models presented in a public model database. In particular, we present Biochemical Space, a novel annotation methodology accompanied with a set of softwaretools that allow to create, manage and maintain the Biochemical Space content. The main idea behind is to create a transparent well-annotated reaction network of chemical entities and elemental reactions onto which the mathematical models are projected.For a given organism, the Biochemical Space represents a unifying platform for understanding of the related biological processes. The contribution of the methodology is three-fold: (i) systemic projection of models to a wellstructured biological knowledge, (ii) simplification of annotation procedure, (iii) targetting several problems such as the presence of lumped model variables, combinatorial explosion in chemical modifications of entities, and hierarchical organisation of locations of

Druh

J_x - Nezařazeno - Článek v odborném periodiku (Jimp, Jsc a Jost)

CEP obor

EH - Ekologie – společenstva

OECD FORD obor

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Projekt

<a href="/cs/project/EE2.3.20.0256" target="_blank" >EE2.3.20.0256: Vytvoření výzkumného týmu a mezinárodního konzorcia pro počítačový model buňky sinice</a><br>

Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2014

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

Electronic Notes in Theoretical Computer Science

ISSN

1571-0661

e-ISSN

—

Svazek periodika

306

Číslo periodika v rámci svazku

JUL

Stát vydavatele periodika

NL - Nizozemsko

Počet stran výsledku

13

Strana od-do

31-44

Kód UT WoS článku

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EID výsledku v databázi Scopus

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