Background: Structural analysis of biochemical networks is a growing field in bioinformatics and systems biology. The availability of an increasing amount of biological data from ...
Eva Grafahrend-Belau, Falk Schreiber, Monika Heine...
Abstract. High-Level net models following the paradigm “nets as tokens” have been studied already in the literature with several interesting applications. In this paper we prop...
Abstract Bigraphs are graphs whose nodes may be nested, representing locality, independently of the edges connecting them. They may be equipped with reaction rules, forming a bigra...
From the phosphorylation state of a molecule to the volume of a cell, parameters are ubiquitous in systems biology. At the same time, most models involve static or dynamic compart...
Meta-modeling is well known to define the basic concepts of domain-specific languages in an object-oriented way. Based on graph transformation, an abstract meta-model may be enhanc...