Formal Biochemical Space with Semantics in Kappa and BNGL

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14330%2F16%3A00088812" target="_blank" >RIV/00216224:14330/16:00088812 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.1016/j.entcs.2016.09.017" target="_blank" >http://dx.doi.org/10.1016/j.entcs.2016.09.017</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1016/j.entcs.2016.09.017" target="_blank" >10.1016/j.entcs.2016.09.017</a>

Result language
angličtina
Original language name
Formal Biochemical Space with Semantics in Kappa and BNGL
Original language description
Biochemical Space (BCS) has been introduced as a semi-formal notation for reaction networks of biological processes. It provides a concise mapping of mathematical models to their biological description established at a desired level of abstraction. In this paper, we first turn BCS into a completely formal language with rigorously defined semantics by means of a simplified Kappa calculus. On the practical end, we support BCS with translation to BNGL, a well-known practically used rule-based language. Finally, we show the current status of BCS defined for cyanobacteria processes.
Czech name
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Czech description
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Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year
2016
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Article name in the collection
The 6th International Workshop on Static Analysis and Systems Biology, SASB 2015
ISBN
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ISSN
1571-0661
e-ISSN
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Number of pages
23
Pages from-to
27-49
Publisher name
Elsevier
Place of publication
Neuveden
Event location
Saint Malo
Event date
Jan 1, 2015
Type of event by nationality
WRD - Celosvětová akce
UT code for WoS article
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