Transactions on Computational Systems Biology I
Thisisthe?rstissueofanewjournaloftheLNCSjournalsubline.Theaimofthe journal is to encourage inter- and multidisciplinary research in the ?elds of c- puter science and life sciences. The recent paradigmatic shift in biology towards a system view of biological phenomena requires a corresponding paradigmatic shift in the techniques from computer science that can face the new challenges. Classical tools usually used in bioinformatics are no longer up to date and new ideas are needed. The convergence of sciences and technologies we are experiencing these days is changing the classical terms of reference for research activities. In fact clear distinctions between disciplines no longer exist because advances in one ?eld permit advances in others and vice versa, thus establishing a positive feedback loop between sciences. The potential impact of the convergence of sciences and technologies is so huge that we must consider how to control and correctly drive our future activities. International and national funding agencies are looking at interdisciplinary research as a key issue for the coming years, especially in the intersection of life sciences and information technology. To speed up this process, we surely need to establish relationships between researchers of di?erent communities and to de?ne a common language that will allow them to exchange ideas and - sults. Furthermore, expectations of di?erent communities can be merged only by running activities like common projects and experiences. TheTransactionsonComputationalSystemsBiologycouldbeagoodforumto helplifescientistsandcomputerscientiststodiscusstogethertheircommongoals.
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Accessible Protein Interaction Data for Network Modeling Structure
Early Systems Biology and Prebiotic Networks
Metamodels and Modeling Languages
Genome Size and Numbers of Biological Functions
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abstraction active modes analysis applied axiom behavior beta binder Beta-binders beta-process biochemical systems Bioinformatics Biol biological systems boxes cell cellular chemical complexity reduction components composition composomes Computational Systems Biology Computer Science concentrations coupled database deﬁned deﬁnition described deterministic diﬀerent diﬀerential equations discrete event models discrete event simulation eigenvalues endocytosis entities enzyme evolution exocytosis experimental ﬁgure ﬁrst formalism GARD genome hybrid integration interaction map Jacobian matrix kinetics macro model metabolic metamodel micro modeling and simulation modeling approaches Molecular Biology molecular species molecules multi-level models Nucleic Acids Res number of active number of genes ODE system pathways Petri Nets phase space pi-processes potential prediction preﬁx Priami processes protein-protein interactions proteomics qualitative quantitative reaction system reﬂected relaxation oscillations semantics sequence speciﬁc split stochastic structure subsystems syntax system dynamics time-dependent time–scale decomposition tion total number trajectory transformation transition tryptophan synthase variables vector virtualization yeast