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Data and Text Processing for Health and Life Sciences

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Book Series: Advances in Experimental Medicine and Biology ISBN: 9783030138455 Year: Pages: 98 DOI: 10.1007/978-3-030-13845-5 Language: English
Publisher: Springer Nature
Subject: Computer Science --- Medicine (General)
Added to DOAB on : 2020-02-05 11:21:03
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This open access book is a step-by-step introduction on how shell scripting can help solve many of the data processing tasks that Health and Life specialists face everyday with minimal software dependencies. The examples presented in the book show how simple command line tools can be used and combined to retrieve data and text from web resources, to filter and mine literature, and to explore the semantics encoded in biomedical ontologies. To store data this book relies on open standard text file formats, such as TSV, CSV, XML, and OWL, that can be open by any text editor or spreadsheet application. The first two chapters, Introduction and Resources, provide a brief introduction to the shell scripting and describe popular data resources in Health and Life Sciences. The third chapter, Data Retrieval, starts by introducing a common data processing task that involves multiple data resources. Then, this chapter explains how to automate each step of that task by introducing the required commands line tools one by one. The fourth chapter, Text Processing, shows how to filter and analyze text by using simple string matching techniques and regular expressions. The last chapter, Semantic Processing, shows how XPath queries and shell scripting is able to process complex data, such as the graphs used to specify ontologies. Besides being almost immutable for more than four decades and being available in most of our personal computers, shell scripting is relatively easy to learn by Health and Life specialists as a sequence of independent commands. Comprehending them is like conducting a new laboratory protocol by testing and understanding its procedural steps and variables, and combining their intermediate results. Thus, this book is particularly relevant to Health and Life specialists or students that want to easily learn how to process data and text, and which in return may facilitate and inspire them to acquire deeper bioinformatics skills in the future.

Real-time Linked Dataspaces

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ISBN: 9783030296650 Year: Pages: 325 DOI: 10.1007/978-3-030-29665-0 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-02-05 11:21:05
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This open access book explores the dataspace paradigm as a best-effort approach to data management within data ecosystems. It establishes the theoretical foundations and principles of real-time linked dataspaces as a data platform for intelligent systems. The book introduces a set of specialized best-effort techniques and models to enable loose administrative proximity and semantic integration for managing and processing events and streams. The book is divided into five major parts: Part I “Fundamentals and Concepts” details the motivation behind and core concepts of real-time linked dataspaces, and establishes the need to evolve data management techniques in order to meet the challenges of enabling data ecosystems for intelligent systems within smart environments. Further, it explains the fundamental concepts of dataspaces and the need for specialization in the processing of dynamic real-time data. Part II “Data Support Services” explores the design and evaluation of critical services, including catalog, entity management, query and search, data service discovery, and human-in-the-loop. In turn, Part III “Stream and Event Processing Services” addresses the design and evaluation of the specialized techniques created for real-time support services including complex event processing, event service composition, stream dissemination, stream matching, and approximate semantic matching. Part IV “Intelligent Systems and Applications” explores the use of real-time linked dataspaces within real-world smart environments. In closing, Part V “Future Directions” outlines future research challenges for dataspaces, data ecosystems, and intelligent systems. Readers will gain a detailed understanding of how the dataspace paradigm is now being used to enable data ecosystems for intelligent systems within smart environments. The book covers the fundamental theory, the creation of new techniques needed for support services, and lessons learned from real-world intelligent systems and applications focused on sustainability. Accordingly, it will benefit not only researchers and graduate students in the fields of data management, big data, and IoT, but also professionals who need to create advanced data management platforms for intelligent systems, smart environments, and data ecosystems.

Linked Open Data - Creating Knowledge Out of Interlinked Data: Results of the LOD2 Project

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Book Series: Lecture Notes in Computer Science ISSN: 03029743 ISBN: 9783319098456 9783319098463 Year: Volume: 8661 Pages: 215 DOI: 10.1007/978-3-319-09846-3 Language: English
Publisher: Springer Nature
Subject: Computer Science --- Pharmacy and materia medica --- Media and communication --- Business and Management --- Biotechnology --- General and Civil Engineering --- Materials --- Electrical and Nuclear Engineering
Added to DOAB on : 2014-10-06 14:35:35
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Linked Open Data (LOD) is a pragmatic approach for realizing the Semantic Web vision of making the Web a global, distributed, semantics-based information system. This book presents an overview on the results of the research project “LOD2 -- Creating Knowledge out of Interlinked Data”. LOD2 is a large-scale integrating project co-funded by the European Commission within the FP7 Information and Communication Technologies Work Program. Commencing in September 2010, this 4-year project comprised leading Linked Open Data research groups, companies, and service providers from across 11 European countries and South Korea. The aim of this project was to advance the state-of-the-art in research and development in four key areas relevant for Linked Data, namely 1. RDF data management; 2. the extraction, creation, and enrichment of structured RDF data; 3. the interlinking and fusion of Linked Data from different sources and 4. the authoring, exploration and visualization of Linked Data.

Benchmarking Eventually Consistent Distributed Storage Systems

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ISBN: 9783731501862 Year: Pages: VIII, 183 p. DOI: 10.5445/KSP/1000039389 Language: ENGLISH
Publisher: KIT Scientific Publishing
Subject: Business and Management
Added to DOAB on : 2019-07-30 20:01:58
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Cloud storage services and NoSQL systems typically offer only ""Eventual Consistency"", a rather weak guarantee covering a broad range of potential data consistency behavior. The degree of actual (in-)consistency, however, is unknown. This work presents novel solutions for determining the degree of (in-)consistency via simulation and benchmarking, as well as the necessary means to resolve inconsistencies leveraging this information.

Advances in Intelligent Data Analysis XVIII

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Book Series: Lecture Notes in Computer Science; Information Systems and Applications, incl. Internet/Web, and HCI ISBN: 9783030445843 Year: Pages: 588 DOI: 10.1007/978-3-030-44584-3 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-05-14 09:29:53
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This open access book constitutes the proceedings of the 18th International Conference on Intelligent Data Analysis, IDA 2020, held in Konstanz, Germany, in April 2020. The 45 full papers presented in this volume were carefully reviewed and selected from 114 submissions. Advancing Intelligent Data Analysis requires novel, potentially game-changing ideas. IDA’s mission is to promote ideas over performance: a solid motivation can be as convincing as exhaustive empirical evaluation.

Supercomputing Frontiers

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Book Series: Lecture Notes in Computer Science; Theoretical Computer Science and General Issues ISBN: 9783030488420 Year: Pages: 139 DOI: 10.1007/978-3-030-48842-0 Language: English
Publisher: Springer Nature
Subject: Computer Science
Added to DOAB on : 2020-06-16 23:58:55
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This open access book constitutes the refereed proceedings of the 6th Asian Supercomputing Conference, SCFA 2020, which was planned to be held in February 2020, but unfortunately, the physical conference was cancelled due to the COVID-19 pandemic. The 8 full papers presented in this book were carefully reviewed and selected from 22 submissions. They cover a range of topics including file systems, memory hierarchy, HPC cloud platform, container image configuration workflow, large-scale applications, and scheduling.

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