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Bioinformatics of Non-Coding RNAs with Applications to Biomedicine: Recent Advances and Open Challenges
The recent discovery of small and long non-coding RNAs (ncRNAs) has represented a major breakthrough in the life sciences. These molecules add a new layer of complexity to biological processes and pathways by revealing a sophisticated and dynamic interconnected system whose structure is just beginning to be uncovered. Genetic and epigenetic aberrations affecting ncRNA gene sequences and their expression have been linked to a variety of pathological conditions, including cancer, cardiovascular and neurological diseases. Latest advances in the development of high throughput analysis techniques may help to shed light on the complex regulatory mechanisms in which ncRNA molecules are involved. Bi...
Gröbner Bases in Symbolic Analysis
This volume contains survey articles and original research papers, presenting the state of the art on applying the symbolic approach of Gröbner bases and related methods to differential and difference equations. The contributions are based on talks delivered at the Special Semester on Gröbner Bases and Related Methods hosted by the Johann Radon Institute of Computational and Applied Mathematics, Linz, Austria, in May 2006.
Computational Methods for Precision Oncology
Precision medicine holds great promise for the treatment of cancer and represents a unique opportunity for accelerated development and application of novel and repurposed therapeutic approaches. Current studies and clinical trials demonstrate the benefits of genomic profiling for patients whose cancer is driven by specific, targetable alterations. However, precision oncologists continue to be challenged by the widespread heterogeneity of cancer genomes and drug responses in designing personalized treatments. Chapters provide a comprehensive overview of the computational approaches, methods, and tools that enable precision oncology, as well as related biological concepts. Covered topics include genome sequencing, the architecture of a precision oncology workflow, and introduces cutting-edge research topics in the field of precision oncology. This book is intended for computational biologists, bioinformaticians, biostatisticians and computational pathologists working in precision oncology and related fields, including cancer genomics, systems biology, and immuno-oncology.
The origin, function and diagnostic potential of extracellular microRNA in human body fluids
Short non-coding RNA molecules, microRNAs (miRNAs), post-transcriptionally regulate gene expression in living cells. In recent years, miRNAs have been found in a wide spectrum of mammalian body fluids including blood plasma, saliva, urine, milk, seminal plasma, tears and amniotic fluid as extracellular circulating nuclease-resistant entities. The changes in miRNA spectra observed in certain fluids correlated with various pathological conditions suggesting that extracellular miRNAs can serve as informative biomarkers for certain diseases including cancer. However, the mechanism of generation and a biological role of extracellular miRNAs remain unclear. The current theories regarding extracellular miRNA origin and function suggest that these miRNAs can be either non-specific ‘by-products’ of cellular activity and cell death or specifically released cell-cell signaling messengers. The goal of this Research Topic is to bring together up-to-date knowledge about the extracellular miRNA and its role in disease diagnostics and, possibly, inter-cellular communication.
Repetitive Structures in Biological Sequences: Algorithms and Applications
Repetitive structures in biological sequences are emerging as an active focus of research and the unifying concept of "repeatome" (the ensemble of knowledge associated with repeating structures in genomic/proteomic sequences) has been recently proposed in order to highlight several converging trends. One main trend is the ongoing discovery that genomic repetitions are linked to many biological significant events and functions. Diseases (e.g. Huntington's disease) have been causally linked with abnormal expansion of certain repeating sequences in the human genome. Deletions or multiple copy duplications of genes (Copy Number Variations) are important in the aetiology of cancer, Alzheimer, and...
From Linear Operators to Computational Biology
In his rich and varied career as a mathematician, computer scientist, and educator, Jacob T. Schwartz wrote seminal works in analysis, mathematical economics, programming languages, algorithmics, and computational geometry. In this volume of essays, his friends, students, and collaborators at the Courant Institute of Mathematical Sciences present recent results in some of the fields that Schwartz explored: quantum theory, the theory and practice of programming, program correctness and decision procedures, dextrous manipulation in Robotics, motion planning, and genomics. In addition to presenting recent results in these fields, these essays illuminate the astonishingly productive trajectory of a brilliant and original scientist and thinker.
Fun with Algorithms
This book constitutes the refereed proceedings of the 7th International Conference, FUN 2014, held in July 2014 in Lipari Island, Sicily, Italy. The 29 revised full papers were carefully reviewed and selected from 49 submissions. They feature a large variety of topics in the field of the use, design and analysis of algorithms and data structures, focusing on results that provide amusing, witty but nonetheless original and scientifically profound contributions to the area. In particular, algorithmic questions rooted in biology, cryptography, game theory, graphs, the internet, robotics and mobility, combinatorics, geometry, stringology, as well as space-conscious, randomized, parallel, distributed algorithms and their visualization are addressed.
Graph Data Management
This book presents a comprehensive overview of fundamental issues and recent advances in graph data management. Its aim is to provide beginning researchers in the area of graph data management, or in fields that require graph data management, an overview of the latest developments in this area, both in applied and in fundamental subdomains. The topics covered range from a general introduction to graph data management, to more specialized topics like graph visualization, flexible queries of graph data, parallel processing, and benchmarking. The book will help researchers put their work in perspective and show them which types of tools, techniques and technologies are available, which ones could best suit their needs, and where there are still open issues and future research directions. The chapters are contributed by leading experts in the relevant areas, presenting a coherent overview of the state of the art in the field. Readers should have a basic knowledge of data management techniques as they are taught in computer science MSc programs.
