Infobiotics


Book Description

The book presents topics in discrete biomathematics. Mathematics has been widely used in modeling biological phenomena. However, the molecular and discrete nature of basic life processes suggests that their logic follow principles that are intrinsically based on discrete and informational mechanisms. The ultimate reason of polymers, as key element of life, is directly based on the computational power of strings, and the intrinsic necessity of metabolism is related to the mathematical notion of multiset. The switch of the two roots of bioinformatics suggests a change of perspective. In bioinformatics, the biologists ask computer scientists to assist them in processing biological data. Conversely, in infobiotics mathematicians and computer scientists investigate principles and theories yielding new interpretation keys of biological phenomena. Life is too important to be investigated by biologists alone, and though computers are essential to process data from biological laboratories, many fundamental questions about life can be appropriately answered by a perspicacious intervention of mathematicians, computer scientists, and physicists, who will complement the work of chemists, biochemists, biologists, and medical investigators. The volume is organized in seven chapters. The first part is devoted to research topics (Discrete information and life, Strings and genomes, Algorithms and Biorhythms, Life Strategies), the second one to mathematical backgrounds (Numbers and Measures, Languages and Grammars, Combinations and Chances).




Applications of Membrane Computing in Systems and Synthetic Biology


Book Description

Membrane Computing was introduced as a computational paradigm in Natural Computing. The models introduced, called Membrane (or P) Systems, provide a coherent platform to describe and study living cells as computational systems. Membrane Systems have been investigated for their computational aspects and employed to model problems in other fields, like: Computer Science, Linguistics, Biology, Economy, Computer Graphics, Robotics, etc. Their inherent parallelism, heterogeneity and intrinsic versatility allow them to model a broad range of processes and phenomena, being also an efficient means to solve and analyze problems in a novel way. Membrane Computing has been used to model biological systems, becoming with time a thorough modeling paradigm comparable, in its modeling and predicting capabilities, to more established models in this area. This book is the result of the need to collect, in an organic way, different facets of this paradigm. The chapters of this book, together with the web pages accompanying them, present different applications of Membrane Systems to Biology. Deterministic, non-deterministic and stochastic systems paired with different algorithms and methodologies show the full potential of this framework. The book is addressed to researchers interested in applications of discrete biological models and the interplay between Membrane Systems and other approaches to analyze complex systems.




Bio-inspired Computing – Theories and Applications


Book Description

The two-volume set, CCIS 681 and CCIS 682, constitutes the proceedings of the 11th International Conference on Bio-Inspired Computing: Theories and Applications, BIC-TA 2016, held in Xi'an, China, in October 2016.The 115 revised full papers presented were carefully reviewed and selected from 343 submissions. The papers of Part I are organized in topical sections on DNA Computing; Membrane Computing; Neural Computing; Machine Learning. The papers of Part II are organized in topical sections on Evolutionary Computing; Multi-objective Optimization; Pattern Recognition; Others.




Research and Development in Intelligent Systems XXVI


Book Description

The most common document formalisation for text classi?cation is the vector space model founded on the bag of words/phrases representation. The main advantage of the vector space model is that it can readily be employed by classi?cation - gorithms. However, the bag of words/phrases representation is suited to capturing only word/phrase frequency; structural and semantic information is ignored. It has been established that structural information plays an important role in classi?cation accuracy [14]. An alternative to the bag of words/phrases representation is a graph based rep- sentation, which intuitively possesses much more expressive power. However, this representation introduces an additional level of complexity in that the calculation of the similarity between two graphs is signi?cantly more computationally expensive than between two vectors (see for example [16]). Some work (see for example [12]) has been done on hybrid representations to capture both structural elements (- ing the graph model) and signi?cant features using the vector model. However the computational resources required to process this hybrid model are still extensive.




Membrane Computing Models: Implementations


Book Description

The theoretical basis of membrane computing was established in the early 2000s with fundamental research into the computational power, complexity aspects and relationships with other (un)conventional computing paradigms. Although this core theoretical research has continued to grow rapidly and vigorously, another area of investigation has since been added, focusing on the applications of this model in many areas, most prominently in systems and synthetic biology, engineering optimization, power system fault diagnosis and mobile robot controller design. The further development of these applications and their broad adoption by other researchers, as well as the expansion of the membrane computing modelling paradigm to other applications, call for a set of robust, efficient, reliable and easy-to-use tools supporting the most significant membrane computing models. This work provides comprehensive descriptions of such tools, making it a valuable resource for anyone interested in membrane computing models.




Pocket Data Mining


Book Description

Owing to continuous advances in the computational power of handheld devices like smartphones and tablet computers, it has become possible to perform Big Data operations including modern data mining processes onboard these small devices. A decade of research has proved the feasibility of what has been termed as Mobile Data Mining, with a focus on one mobile device running data mining processes. However, it is not before 2010 until the authors of this book initiated the Pocket Data Mining (PDM) project exploiting the seamless communication among handheld devices performing data analysis tasks that were infeasible until recently. PDM is the process of collaboratively extracting knowledge from distributed data streams in a mobile computing environment. This book provides the reader with an in-depth treatment on this emerging area of research. Details of techniques used and thorough experimental studies are given. More importantly and exclusive to this book, the authors provide detailed practical guide on the deployment of PDM in the mobile environment. An important extension to the basic implementation of PDM dealing with concept drift is also reported. In the era of Big Data, potential applications of paramount importance offered by PDM in a variety of domains including security, business and telemedicine are discussed.




Transactions on Large-Scale Data- and Knowledge-Centered Systems V


Book Description

The LNCS journal Transactions on Large-Scale Data- and Knowledge-Centered Systems focuses on data management, knowledge discovery, and knowledge processing, which are core and hot topics in computer science. Since the 1990s, the Internet has become the main driving force behind application development in all domains. An increase in the demand for resource sharing across different sites connected through networks has led to an evolution of data- and knowledge-management systems from centralized systems to decentralized systems enabling large-scale distributed applications providing high scalability. Current decentralized systems still focus on data and knowledge as their main resource. Feasibility of these systems relies basically on P2P (peer-to-peer) techniques and the support of agent systems with scaling and decentralized control. Synergy between Grids, P2P systems, and agent technologies is the key to data- and knowledge-centered systems in large-scale environments. This, the fifth issue of Transactions on Large-Scale Data- and Knowledge-Centered Systems, contains nine selected full-length papers, focusing on the topics of query processing, information extraction, management of dataspaces and contents, and mobile applications.




Membrane Computing


Book Description

This book contains revised selected papers from the 17th International Conference on Membrane Computing, CMC 2017, held in Milan, Italy, in July 2016. The 19 full papers presented in this volume were carefully reviewed and selected from 28 submissions. They deal with membrane computing (P systems theory), an area of copmputer science aiming to abstract computing ideas and models from the structure and the functioning of living cells, as well as from the way the cells are organized in tissues or higher order structures. The volume also contains 3 invited talks in full-paper length.




Advances in Unconventional Computing


Book Description

The unconventional computing is a niche for interdisciplinary science, cross-bred of computer science, physics, mathematics, chemistry, electronic engineering, biology, material science and nanotechnology. The aims of this book are to uncover and exploit principles and mechanisms of information processing in and functional properties of physical, chemical and living systems to develop efficient algorithms, design optimal architectures and manufacture working prototypes of future and emergent computing devices. This second volume presents experimental laboratory prototypes and applied computing implementations. Emergent molecular computing is presented by enzymatic logical gates and circuits, and DNA nano-devices. Reaction-diffusion chemical computing is exemplified by logical circuits in Belousov-Zhabotinsky medium and geometrical computation in precipitating chemical reactions. Logical circuits realised with solitons and impulses in polymer chains show advances in collision-based computing. Photo-chemical and memristive devices give us a glimpse on hot topics of a novel hardware. Practical computing is represented by algorithms of collective and immune-computing and nature-inspired optimisation. Living computing devices are implemented in real and simulated cells, regenerating organisms, plant roots and slime mould. The book is the encyclopedia, the first ever complete authoritative account, of the theoretical and experimental findings in the unconventional computing written by the world leaders in the field. All chapters are self-contains, no specialist background is required to appreciate ideas, findings, constructs and designs presented. This treatise in unconventional computing appeals to readers from all walks of life, from high-school pupils to university professors, from mathematicians, computers scientists and engineers to chemists and biologists.




Bioinformatics and Biomedical Engineering


Book Description

This volume constitutes the proceedings of the 9th International Work-Conference on IWBBIO 2020, held in Maspalomas, Gran Canaria, Spain, in June 2022. The total of 75 papers presented in the proceedings, was carefully reviewed and selected from 212 submissions. The papers cover the latest ideas and realizations in the foundations, theory, models, and applications for interdisciplinary and multidisciplinary research encompassing disciplines of computer science, mathematics, statistics, biology, bioinformatics, and biomedicine.