This mini-review discusses agent-based models as modeling techniques for studying pattern formation of multi-cellular systems in biology. We introduce and compare different model frameworks with respect to spatial representation, microenvironment, intracellular extracellular reactions, cellular properties, implementation, practical use. The guiding criteria the considered selection are that the...

Abstract We introduce the concept of Canonical Workflow Building Blocks (CWBB), a methodology describing and wrapping computational tools, in order for them to be utilised reproducible manner from multiple workflow languages execution platforms. The is implemented demonstrated with BioExcel library (BioBB), collection tool wrappers field biomolecular simulation. Interoperability across differen...

Natural systems are currently being regarded as rich sources of inspiration for engineering artificial systems, particularly when adopting the multiagent system (MAS) paradigm. To promote a systematic reuse of mechanisms featured in self-organizing systems, we analyse a selected list of design patterns for recurrent problems in the literature. Starting from our reference MAS metamodel, we provi...

Service-oriented architectures are a popular architectural paradigm for building software applications from a number of loosely coupled, distributed services. Through a set of procedural rules, workflow technologies define how groups of services coordinate with one another to achieve a shared task. A problem with workflow specifications is that often the patterns of interaction between the dist...

Record linkage has been subject of research for several decades, and a huge number of record linkage solutions have been proposed, based on probabilistic and empirical paradigms. However, record linkage is a complex process, for the execution of which one single technique is often not enough; it can be seen as composed by distinct phases, each requiring a specific technique and depending on giv...

In this paper we evaluate clinical guidelines modelling languages using the Workflow Patterns as an analysis framework. The analysis provided for clinical guidelines aims at an unbiased and vendor-independent survey of the expressive power of some modelling languages for representing clinical guidelines. The results from the survey could be used for the selection of a specification for represen...

Motivated by the response pattern for property specifications and applications within flexible workflow management systems, we report upon an initial study of modal and mixed transition systems in which the must transitions are interpreted as must eventually, and in which implementations can contain may behaviors that are resolved at run-time. We propose Transition Systems with Responses (TSRs)...

Recent research in e-contracts is concerned with the development of frameworks and tools to support contracts. ER framework is one that enables modelling and deployment of e-contracts. In this work, we have designed and developed a toolkit for contract visualization and enactment based on ER data model. This toolkit provides appropriate services for semiautomated contract execution starting fro...

This paper presents an approach that we have developed to support the design of secure service based applications in BPEL. The approach is based on the use of secure service composition patterns, which are proven to preserve composition level security properties if the services that are composed according to the pattern satisfy other properties individually. The secure service composition patte...

Contemporary business applications often employ a process layer in order to coordinate automated activities. One option to build such a layer is to use a workflow management system. But the all-or-nothing fashion of such systems makes them sometimes hard to integrate. In such cases, custom development is an alternative. Yet concepts for the micro-architecture of process layers in business appli...