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Discrete and Topological Models in Molecular Biology
Theoretical tools and insights from discrete mathematics, theoretical computer science, and topology now play essential roles in our understanding of vital biomolecular processes. The related methods are now employed in various fields of mathematical biology as instruments to "zoom in" on processes at a molecular level. This book contains expository chapters on how contemporary models from discrete mathematics – in domains such as algebra, combinatorics, and graph and knot theories – can provide perspective on biomolecular problems ranging from data analysis, molecular and gene arrangements and structures, and knotted DNA embeddings via spatial graph models to the dynamics and kinetics of molecular interactions. The contributing authors are among the leading scientists in this field and the book is a reference for researchers in mathematics and theoretical computer science who are engaged with modeling molecular and biological phenomena using discrete methods. It may also serve as a guide and supplement for graduate courses in mathematical biology or bioinformatics, introducing nontraditional aspects of mathematical biology.
Biological Ontologies and Semantic Biology
As the amount of biological information and its diversity accumulates massively there is a critical need to facilitate the integration of this data to allow new and unexpected conclusions to be drawn from it. The Semantic Web is a new wave of web- based technologies that allows the linking of data between diverse data sets via standardised data formats (“big data”). Semantic Biology is the application of semantic web technology in the biological domain (including medical and health informatics). The Special Topic encompasses papers in this very broad area, including not only ontologies (development and applications), but also text mining, data integration and data analysis making use of ...
High Confidence Network Predictions from Big Biological Data
Biology functions in a most intriguing fashion, with human cells being regulated by multiplex networks of proteins and their dependent systems that control everything from proliferation to cell death. Notably, there are cases when these networks fail to function properly. In some diseases there are multiple small perturbations that push the otherwise healthy cells into a state of malfunction. These maladies are referred to as complex diseases, and include common disorders such as allergy, diabetes type II, and multiple sclerosis, and due to their complexity there is no universally defined approach to fully understand their pathogenesis or pathophysiology. While these perturbations can be mea...
Computational Approaches in Aid of Advancing Understanding in Plant Physiology
The recent data flood has required greater and greater reliance on computational usage in plant biology. This Research Topic will focus on the utility of computational approaches across the breadth of modern plant biology with particular focus on the following areas: (i) Comparative genomics- gene family size in the green lineage (ii) Adaptive evolution - specifics of development (iii) Adaptive evolution - specifics of secondary metabolism (iv) Translational biology- co-response analysis from arabidopsis outwards (v) Conserved(and differential) transcriptional response to stress (vi) Transcriptomics databases (vii) Translatomics (ix) Proteomics- abundance (x) Proteomics- location, (xi) Proteomics- interactions (xii) Proteomics databases (xiii) he activome (xiv)Metabolite-abundance (xv) metabolite- location (xvi) Experimental flux calculations, (xvii)dvanced metabolomic technologies (xviii) metabolite databases (xix) Genome wide metabolic modelling
Molecular Mechanisms in Plant Adaptation
Plants are forced to adapt for a variety of reasons— protection, reproductive viability, and environmental and climatic changes. Computational tools and molecular advances have provided researchers with significant new insights into the molecular basis of plant adaptation. Molecular Mechanisms in Plant Adaptation provides a comprehensive overview of a wide variety of these different mechanisms underlying adaptation to these challenges to plant survival. Molecular Mechanisms in Plant Adaptation opens with a chapter that explores the latest technological advances used in plant adaptation research, providing readers with an overview of high-throughput technologies and their applications. The ...
Proceedings of the 7th Ph.D. Retreat of the HPI Research School on Service-oriented Systems Engineering
Design and Implementation of service-oriented architectures imposes a huge number of research questions from the fields of software engineering, system analysis and modeling, adaptability, and application integration. Component orientation and web services are two approaches for design and realization of complex web-based system. Both approaches allow for dynamic application adaptation as well as integration of enterprise application. Commonly used technologies, such as J2EE and .NET, form de facto standards for the realization of complex distributed systems. Evolution of component systems has lead to web services and service-based architectures. This has been manifested in a multitude of in...
Digitalized Markets
This book addresses how digitalization influences markets, and attempts to put research on digitalized markets center-stage. It explores digitalized markets through empirically based theorizing concerning the consequences of digitalization for mundane markets. The individual chapters explore several mundane markets, including personal transportation, temporary accommodation, fashion clothing, concert tickets, and web shopping. They employ a variety of useful concepts and methods to approach the complexity of digitalization of markets. Based on these accounts, the digitalization of markets is conceived as comprising transformation of three main aspects of markets. First, digitalization transf...
