The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences. It 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. The six papers selected for this special issue cover a broad range of topics.
This issue of the journal reports regular papers. The ?rst contribution is by ParasChopra and Andreas Bender and discusses quantitative modelling aspects of the bgl operon for E. coli. The second contribution is by Rodrick Wallace and Deborah Wallace and deals with ecosystem transitions a?ecting phenotype - pressions and selection mechanisms. The techniques used are statistical models. The thirdcontributionis byRoberto Barbuti,Andrea Maggiolo-Schettini,Paolo Milazzo, Paolo Tiberi and Angelo Troina and presents the Stochastic Calculus of Looping Sequences (SCLS) suitable for the description of microbiologicals- tems, such as cellular pathways, and their evolution. The last contribution is by Federica Ciocchetta and describes the use of biological transactions to make atomic sequences of interactions in the BlenX language. May 2008 Corrado Priami LNCS Transactions on Computational Systems Biology – Editorial Board Corrado Priami, Editor-in-chief University of Trento, Italy Charles Au?ray Genexpress, CNRS and Pierre & Marie Curie University, France Matthew Bellgard Murdoch University, Australia Soren Brunak Technical University of Denmark, Denmark Luca Cardelli Microsoft Research Cambridge, UK Zhu Chen Shanghai Institute of Hematology, China Vincent Danos CNRS, University of Paris VII, France Eytan Domany Center for Systems Biology, Weizmann Institute, Israel Walter Fontana Santa Fe Institute, USA Takashi Gojobori National Institute of Genetics, Japan Martijn A.
This book constitutes the refereed proceedings of the 14th IFIP WG 9.4 International Conference on Social Implications of Computers in Developing Countries, ICT4D 2017, held in Yogyakarta, Indonesia, in May 2017. The 60 revised full papers and 8 short papers presented together with 3 keynotes were carefully reviewed and selected from 118 submissions. The papers are organized in the following topical sections: large scale and complex information systems for development; women empowerment and gender justice; social mechanisms of ICT-enabled development; the data revolution and sustainable development goals; critical perspectives on ICT and open innovation for development; the contribution of practice theories to ICT for development; agile development; indigenous local community grounded ICT developments; global sourcing and development; sustainability in ICT4D; and information systems development and implementation in Southeast Asia. Also included are a graduate student track, current issues and notes. The chapter ‘An Analysis of Accountability Concepts for Open Development’ is open access under a CC BY 4.0 license via link.springer.com.
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.
This book constitutes the refereed proceedings of the Third International Conference on Algebraic Biology, AB 2008, held at the Castle of Hagenberg, Austria in July 2008 as part of the RISC Summer 2008, organized by the Research Institute for Symbolic Computation. The 14 revised full papers presented together with 3 tutorial lectures were carefully reviewed and selected from 27 submissions. The conference is the interdisciplinary forum for the presentation of research on all aspects of applications of symbolic computation (computer algebra, computational logic, and related methods) to various issues in biology and life sciences as well as other problems in biology being approached with symbolic methods.
This book presents a set of 14 papers accompanying the lectures of leading researchers given at the 8th edition of the International School on Formal Methods for the Design of Computer, Communication and Software Systems, SFM 2008, held in Bertinoro, Italy in June 2008. SFM 2008 was devoted to formal techniques for computational systems biology and covered several aspects of the field, including computational models, calculi and logics for biological systems, and verification and simulation methods. The first part of this volume comprises nine papers based on regular lectures, the second part of this volume comprises five papers based on talks given by people involved in the Italian BISCA research project on Bio-Inspired Systems and Calculi with Applications.
Self-Organization in Sensor and Actor Networks explores self-organization mechanisms and methodologies concerning the efficient coordination between intercommunicating autonomous systems.Self-organization is often referred to as the multitude of algorithms and methods that organise the global behaviour of a system based on inter-system communication. Studies of self-organization in natural systems first took off in the 1960s. In technology, such approaches have become a hot research topic over the last 4-5 years with emphasis upon management and control in communication networks, and especially in resource-constrained sensor and actor networks. In the area of ad hoc networks new solutions have been discovered that imitate the properties of self-organization. Some algorithms for on-demand communication and coordination, including data-centric networking, are well-known examples. Key features include: Detailed treatment of self-organization, mobile sensor and actor networks, coordination between autonomous systems, and bio-inspired networking. Overview of the basic methodologies for self-organization, a comparison to central and hierarchical control, and classification of algorithms and techniques in sensor and actor networks. Explanation of medium access control, ad hoc routing, data-centric networking, synchronization, and task allocation issues. Introduction to swarm intelligence, artificial immune system, molecular information exchange. Numerous examples and application scenarios to illustrate the theory. Self-Organization in Sensor and Actor Networks will prove essential reading for students of computer science and related fields; researchers working in the area of massively distributed systems, sensor networks, self-organization, and bio-inspired networking will also find this reference useful.
This volume, the 7th in the Transactions on Computational Systems Biology series, contains a fully refereed and carefully selected set of papers from two workshops: BioConcur 2004 held in London, UK in August 2004 and BioConcur 2005 held in San Francisco, CA, USA in August 2005. The 8 papers chosen for this special issue are devoted to various aspects of computational methods, algorithms, and techniques in bioinformatics.
The 8th volume of ToPNoC contains revised and extended versions of a selection of the best workshop papers presented at the 33rd International Conference on Application and Theory of Petri Nets and Other Models of Concurrency (Petri Nets 2012). The 10 papers cover a diverse range of topics including model checking and system verification, refinement and synthesis, foundational work on specific classes of Petri nets, and innovative applications of Petri nets and other models of concurrency. Application areas covered in this volume are: biological systems, communication protocols, business processes, collaborative team work, and Petri net education. Thus this volume gives a good view of ongoing concurrent systems and Petri nets research.
Modeling is fast becoming fundamental to understanding the processes that define biological systems. High-throughput technologies are producing increasing quantities of data that require an ever-expanding toolset for their effective analysis and interpretation. Analysis of high-throughput data in the context of a molecular interaction network is particularly informative as it has the potential to reveal the most relevant network modules with respect to a phenotype or biological process of interest.Analysis of Biological Systems collects classical material on analysis, modeling and simulation, thereby acting as a unique point of reference. The joint application of statistical techniques to extract knowledge from big data and map it into mechanistic models is a current challenge of the field, and the reader will learn how to build and use models even if they have no computing or math background. An in-depth analysis of the currently available technologies, and a comparison between them, is also included. Unlike other reference books, this in-depth analysis is extended even to the field of language-based modeling. The overall result is an indispensable, self-contained and systematic approach to a rapidly expanding field of science.
