Bond graphs can be used to build thermodynamically-compliant hierarchical models of biomolecular systems. As bond graphs have been widely used to model, analyse and synthesise engineering systems, this study suggests that they can play the same rôle in the modelling, analysis and synthesis of biomolecular systems. The particular structure of bond graphs arising from biomolecular systems is esta...

The concept of causality presents a problem for component-based modeling of bond graphs, the uncertainty of the causality of each interaction bond. As a result we use generalized bond graphs instead, which is mathematically represented by its Dirac structure. Through the use of generalized bond graphs we can represent each component as a causal computational model (hybrid-input-output represent...

The 2-bond is a generalization of the 2-join where the subsets of nodes that are connected on each shore of the partition are not necessarily disjoint. If all the subsets are cliques we say that the 2-bond is a 2-clique-bond. We consider a graph G obtained as the 2-clique-bond of two graphs G1 and G2 and we study the polyhedral properties of the stable set polytope associated with this graph. I...

This paper is to introduce circuit, bond, flow, and tension spaces and lattices for signed graphs, and to study the relations among these spaces and lattices. The key ingredient is to introduce circuit and bond characteristic vectors so that the desired spaces and lattices can be defined such that their dimensions and ranks match well to that of matroids of signed graphs. The main results can b...

This paper presents the development of energy-based unified representations for buildings called Archi Bond Graphs and then specialises them as qualitative Archi Bond Graphs that combine graphical representations and qualitative equations. They can be applied to simulations of people behaviour and people-energy behaviour in space-people systems, building energy flows and building energy variati...

In this paper we introduce the use of bond graphs for the implementation of classic physical models of musical instruments. Bond graphs are a diagrambased technique for representing physical systems, such as an electrical circuit or a mechanical engine. They provide a precise and unambiguous modelling tool which allows for the specification of hierarchical physical structures. The paper begins ...