This book constitutes the thoroughly refereed post-proceedings of the First International Workshop on Knowledge Discovery and Emergent Complexity in Bioinformatics, KDECB 2006, held in Ghent, Belgium, in May 2006, in connection with the 15th Belgium-Netherlands Conference on Machine Learning. The 12 revised full papers cover various topics in the areas of knowledge discovery and emergent complexity research in bioinformatics.
This book provides a broad overview of the topic Bioinformatics with focus on data, information and knowledge. From data acquisition and storage to visualization, ranging through privacy, regulatory and other practical and theoretical topics, the author touches several fundamental aspects of the innovative interface between Medical and Technology domains that is Biomedical Informatics. Each chapter starts by providing a useful inventory of definitions and commonly used acronyms for each topic and throughout the text, the reader finds several real-world examples, methodologies and ideas that complement the technical and theoretical background. This new edition includes new sections at the end of each chapter, called "future outlook and research avenues," providing pointers to future challenges. At the beginning of each chapter a new section called "key problems", has been added, where the author discusses possible traps and unsolvable or major problems.
Like a data-guzzling turbo engine, advanced data mining has been powering post-genome biological studies for two decades. Reflecting this growth, Biological Data Mining presents comprehensive data mining concepts, theories, and applications in current biological and medical research. Each chapter is written by a distinguished team of interdisciplin
Machine Learning can be defined in various ways related to a scientific domain concerned with the design and development of theoretical and implementation tools that allow building systems with some Human Like intelligent behavior. Machine learning addresses more specifically the ability to improve automatically through experience.
Natural Language Processing In Healthcare: A Special Focus on Low Resource Languages covers the theoretical and practical aspects as well as ethical and social implications of NLP in healthcare. It showcases the latest research and developments contributing to the rising awareness and importance of maintaining linguistic diversity. The book goes on to present current advances and scenarios based on solutions in healthcare and low resource languages and identifies the major challenges and opportunities that will impact NLP in clinical practice and health studies.
The Semantic Web has been a very important development in how knowledge is disseminated and manipulated on the Web, but it has been of particular importance to the flow of scientific knowledge, and will continue to shape how data is stored and accessed in a broad range of disciplines, including life sciences, earth science, materials science, and the social sciences. After first presenting papers on the foundations of semantic e-science, including papers on scientific knowledge acquisition, data integration, and workflow, this volume looks at the state of the art in each of the above-mentioned disciplines, presenting research on semantic web applications in the life, earth, materials, and social sciences. Drawing papers from three semantic web workshops, as well as papers from several invited contributors, this volume illustrates how far semantic web applications have come in helping to manage scientific information flow.
CiE 2008: Logic and Theory of Algorithms Athens, Greece, June 15–20, 2008 Computability in Europe (CiE) is an informal network of European scientists working on computability theory, including its foundations, technical devel- ment, and applications. Among the aims of the network is to advance our t- oretical understanding of what can and cannot be computed, by any means of computation. Its scienti?c vision is broad: computations may be performed with discrete or continuous data by all kinds of algorithms, programs, and - chines. Computations may be made by experimenting with any sort of physical system obeying the laws of a physical theory such as Newtonian mechanics, quantum theory, or relativity. Computations may be very general, depending on the foundations of set theory; or very speci?c, using the combinatorics of ?nite structures. CiE also works on subjects intimately related to computation, especially theories of data and information, and methods for formal reasoning about computations. The sources of new ideas and methods include practical developments in areas such as neural networks, quantum computation, natural computation, molecular computation, computational learning. Applications are everywhere,especially, in algebra,analysisand geometry, or data types and p- gramming. Within CiE there is general recognition of the underlying relevance of computability to physics and a broad range of other sciences, providing as it does a basic analysis of the causal structure of dynamical systems. Thisvolume,Logic andTheory of Algorithms,istheproceedingsofthefourth in a series of conferences of CiE that was held at the University of Athens, June 15–20, 2008.
This book is the result of a group of researchers from different disciplines asking themselves one question: what does it take to develop a computer interface that listens, talks, and can answer questions in a domain? First, obviously, it takes specialized modules for speech recognition and synthesis, human interaction management (dialogue, input fusion, and multimodal output fusion), basic question understanding, and answer finding. While all modules are researched as independent subfields, this book describes the development of state-of-the-art modules and their integration into a single, working application capable of answering medical (encyclopedic) questions such as "How long is a person with measles contagious?" or "How can I prevent RSI?". The contributions in this book, which grew out of the IMIX project funded by the Netherlands Organisation for Scientific Research, document the development of this system, but also address more general issues in natural language processing, such as the development of multidimensional dialogue systems, the acquisition of taxonomic knowledge from text, answer fusion, sequence processing for domain-specific entity recognition, and syntactic parsing for question answering. Together, they offer an overview of the most important findings and lessons learned in the scope of the IMIX project, making the book of interest to both academic and commercial developers of human-machine interaction systems in Dutch or any other language. Highlights include: integrating multi-modal input fusion in dialogue management (Van Schooten and Op den Akker), state-of-the-art approaches to the extraction of term variants (Van der Plas, Tiedemann, and Fahmi; Tjong Kim Sang, Hofmann, and De Rijke), and multi-modal answer fusion (two chapters by Van Hooijdonk, Bosma, Krahmer, Maes, Theune, and Marsi). Watch the IMIX movie at www.nwo.nl/imix-film. Like IBM's Watson, the IMIX system described in the book gives naturally phrased responses to naturally posed questions. Where Watson can only generate synthetic speech, the IMIX system also recognizes speech. On the other hand, Watson is able to win a television quiz, while the IMIX system is domain-specific, answering only to medical questions. "The Netherlands has always been one of the leaders in the general field of Human Language Technology, and IMIX is no exception. It was a very ambitious program, with a remarkably successful performance leading to interesting results. The teams covered a remarkable amount of territory in the general sphere of multimodal question answering and information delivery, question answering, information extraction and component technologies." Eduard Hovy, USC, USA, Jon Oberlander, University of Edinburgh, Scotland, and Norbert Reithinger, DFKI, Germany
This book constitutes the thoroughly refereed post-proceedings of the First International Workshop on Knowledge Discovery and Emergent Complexity in Bioinformatics, KDECB 2006, held in Ghent, Belgium, in May 2006, in connection with the 15th Belgium-Netherlands Conference on Machine Learning. The 12 revised full papers cover various topics in the areas of knowledge discovery and emergent complexity research in bioinformatics.
Mathematical and computational models play an essential role in understanding the cellular metabolism. They are used as platforms to integrate current knowledge on a biological system and to systematically test and predict the effect of manipulations to such systems. The recent advances in genome sequencing techniques have facilitated the reconstruction of genome-scale metabolic networks for a wide variety of organisms from microbes to human cells. These models have been successfully used in multiple biotechnological applications. Despite these advancements, modeling cellular metabolism still presents many challenges. The aim of this Research Topic is not only to expose and consolidate the state-of-the-art in metabolic modeling approaches, but also to push this frontier beyond the current edge through the introduction of innovative solutions. The articles presented in this e-book address some of the main challenges in the field, including the integration of different modeling formalisms, the integration of heterogeneous data sources into metabolic models, explicit representation of other biological processes during phenotype simulation, and standardization efforts in the representation of metabolic models and simulation results.
