This, the 4th Transactions on Computational Systems Biology volume, contains carefully selected and enhanced contributions presented at the first Converging Science conference held at the University of Trento, Italy, in December 2004. Dedicated especially to models and metaphors from biology to bioinformatics tools, the 11 papers selected for the special issue cover a wide range of bioinformatics research, such as foundations of global computing, interdisciplinarity in innovation initiatives, biodiversity, and more.

This, the 4th Transactions on Computational Systems Biology volume, contains carefully selected and enhanced contributions presented at the first Converging Science conference held at the University of Trento, Italy, in December 2004. Dedicated especially to models and metaphors from biology to bioinformatics tools, the 11 papers selected for the special issue cover a wide range of bioinformatics research, such as foundations of global computing, interdisciplinarity in innovation initiatives, biodiversity, and more.

The 5th Transactions on Computational Systems Biology volume, edited by Gordon Plotkin, features carefully selected and enhanced contributions initially presented at the 2005 IEEE International Conference on Granular Computing. The 9 papers selected for this special issue discuss various aspects of computational methods, algorithm and techniques in bioinformatics such as gene expression analysis, biomedical literature mining and natural language processing, protein structure prediction, biological database management and biomedical information retrieval.

This book covers Computational Models for Cell Processes, featuring enhanced contributions from the CompMod workshop (2009). Covers a wide range of topics in systems biology, addressing the dynamics and the computational principles of this emerging field.

The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena. This issue contains four highly detailed papers. The first paper focuses on quantitative aspects of the bgl operon for E.coli. The second contribution deals with ecosystem transitions affecting phenotype expressions and selection mechanisms. The third paper presents the Stochastic Calculus of Looping Sequences (SCLS) suitable for the description of microbiological systems, such as cellular pathways, and their evolution. The final contribution describes the use of biological transactions to make atomic sequences of interactions in the BlenX language.

The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena. This second volume of the Transactions on Computational Systems Biology is devoted to considerably extended versions of selected papers presented at the International Workshop on Bioinformatics Research and Applications (IWBRA 2005), part of the International Conference on Computational Science (ICCS 2005), which took place at Emory University, Atlanta, Georgia, USA, in May 2005. The ten papers selected for the special issue cover a wide range of bioinformatics research such as problems in RNA structure prediction, coding schemes and structural alphabets for protein structure prediction, novel techniques for efficient gene transfer in phylogenetic networks, practical algorithms minimizing recombinations in pedigree phasing, parallel implementation in Open MP for finding the corresponding shortest edit distance between two signed gene permutations, and bioinformatics problems in DNA microarrays.