Information Theoretic Evaluation For Computational Biomedical Ontologies

Author : Wyatt Travis Clark
Publisher : Springer Science & Business Media
ISBN 13 : 331904138X
Total Pages : 50 pages
Book Rating : 4.84/5 ( download)

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Download or read book Information-Theoretic Evaluation for Computational Biomedical Ontologies written by Wyatt Travis Clark and published by Springer Science & Business Media. This book was released on 2014-01-09 with total page 50 pages. Available in PDF, EPUB and Kindle. Book excerpt: The development of effective methods for the prediction of ontological annotations is an important goal in computational biology, yet evaluating their performance is difficult due to problems caused by the structure of biomedical ontologies and incomplete annotations of genes. This work proposes an information-theoretic framework to evaluate the performance of computational protein function prediction. A Bayesian network is used, structured according to the underlying ontology, to model the prior probability of a protein's function. The concepts of misinformation and remaining uncertainty are then defined, that can be seen as analogs of precision and recall. Finally, semantic distance is proposed as a single statistic for ranking classification models. The approach is evaluated by analyzing three protein function predictors of gene ontology terms. The work addresses several weaknesses of current metrics, and provides valuable insights into the performance of protein function prediction tools.

Author :
Publisher : Elsevier
ISBN 13 : 0128114320
Total Pages : 3421 pages
Book Rating : 4.22/5 ( download)

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Download or read book Encyclopedia of Bioinformatics and Computational Biology written by and published by Elsevier. This book was released on 2018-08-21 with total page 3421 pages. Available in PDF, EPUB and Kindle. Book excerpt: Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, Three Volume Set combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases

Author : Stephan Winter
Publisher : Springer
ISBN 13 : 3540747885
Total Pages : 455 pages
Book Rating : 4.88/5 ( download)

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Download or read book Spatial Information Theory written by Stephan Winter and published by Springer. This book was released on 2007-08-26 with total page 455 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 8th International Conference on Spatial Information Theory, COSIT 2007, held in Melbourne, Australia in September 2007. The 27 revised full papers were carefully reviewed from 102 submissions, and they are organized in topical sections on cultural studies, semantics, similarity, mapping and representation, perception and cognition, reasoning and algorithms, navigation and landmarks, as well as uncertainty and imperfection.

Author : Sébastien Harispe
Publisher : Springer Nature
ISBN 13 : 3031021568
Total Pages : 245 pages
Book Rating : 4.65/5 ( download)

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Download or read book Semantic Similarity from Natural Language and Ontology Analysis written by Sébastien Harispe and published by Springer Nature. This book was released on 2022-05-31 with total page 245 pages. Available in PDF, EPUB and Kindle. Book excerpt: Artificial Intelligence federates numerous scientific fields in the aim of developing machines able to assist human operators performing complex treatments---most of which demand high cognitive skills (e.g. learning or decision processes). Central to this quest is to give machines the ability to estimate the likeness or similarity between things in the way human beings estimate the similarity between stimuli. In this context, this book focuses on semantic measures: approaches designed for comparing semantic entities such as units of language, e.g. words, sentences, or concepts and instances defined into knowledge bases. The aim of these measures is to assess the similarity or relatedness of such semantic entities by taking into account their semantics, i.e. their meaning---intuitively, the words tea and coffee, which both refer to stimulating beverage, will be estimated to be more semantically similar than the words toffee (confection) and coffee, despite that the last pair has a higher syntactic similarity. The two state-of-the-art approaches for estimating and quantifying semantic similarities/relatedness of semantic entities are presented in detail: the first one relies on corpora analysis and is based on Natural Language Processing techniques and semantic models while the second is based on more or less formal, computer-readable and workable forms of knowledge such as semantic networks, thesauri or ontologies. Semantic measures are widely used today to compare units of language, concepts, instances or even resources indexed by them (e.g., documents, genes). They are central elements of a large variety of Natural Language Processing applications and knowledge-based treatments, and have therefore naturally been subject to intensive and interdisciplinary research efforts during last decades. Beyond a simple inventory and categorization of existing measures, the aim of this monograph is to convey novices as well as researchers of these domains toward a better understanding of semantic similarity estimation and more generally semantic measures. To this end, we propose an in-depth characterization of existing proposals by discussing their features, the assumptions on which they are based and empirical results regarding their performance in particular applications. By answering these questions and by providing a detailed discussion on the foundations of semantic measures, our aim is to give the reader key knowledge required to: (i) select the more relevant methods according to a particular usage context, (ii) understand the challenges offered to this field of study, (iii) distinguish room of improvements for state-of-the-art approaches and (iv) stimulate creativity toward the development of new approaches. In this aim, several definitions, theoretical and practical details, as well as concrete applications are presented.

Author : Khosrow-Pour, D.B.A., Mehdi
Publisher : IGI Global
ISBN 13 : 1522575995
Total Pages : 1857 pages
Book Rating : 4.93/5 ( download)

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Download or read book Advanced Methodologies and Technologies in Network Architecture, Mobile Computing, and Data Analytics written by Khosrow-Pour, D.B.A., Mehdi and published by IGI Global. This book was released on 2018-10-19 with total page 1857 pages. Available in PDF, EPUB and Kindle. Book excerpt: From cloud computing to data analytics, society stores vast supplies of information through wireless networks and mobile computing. As organizations are becoming increasingly more wireless, ensuring the security and seamless function of electronic gadgets while creating a strong network is imperative. Advanced Methodologies and Technologies in Network Architecture, Mobile Computing, and Data Analytics highlights the challenges associated with creating a strong network architecture in a perpetually online society. Readers will learn various methods in building a seamless mobile computing option and the most effective means of analyzing big data. This book is an important resource for information technology professionals, software developers, data analysts, graduate-level students, researchers, computer engineers, and IT specialists seeking modern information on emerging methods in data mining, information technology, and wireless networks.

Author : Ajith Abraham
Publisher : Springer Science & Business Media
ISBN 13 : 3642227139
Total Pages : 744 pages
Book Rating : 4.34/5 ( download)

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Download or read book Advances in Computing and Communications, Part II written by Ajith Abraham and published by Springer Science & Business Media. This book was released on 2011-07-08 with total page 744 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume is the second part of a four-volume set (CCIS 190, CCIS 191, CCIS 192, CCIS 193), which constitutes the refereed proceedings of the First International Conference on Computing and Communications, ACC 2011, held in Kochi, India, in July 2011. The 72 revised full papers presented in this volume were carefully reviewed and selected from a large number of submissions. The papers are organized in topical sections on database and information systems; distributed software development; human computer interaction and interface; ICT; internet and Web computing; mobile computing; multi agent systems; multimedia and video systems; parallel and distributed algorithms; security, trust and privacy.

Author : Assa Reichert
Publisher : IOS Press
ISBN 13 : 9781586036140
Total Pages : 430 pages
Book Rating : 4.49/5 ( download)

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Download or read book Integrating Biomedical Information written by Assa Reichert and published by IOS Press. This book was released on 2006 with total page 430 pages. Available in PDF, EPUB and Kindle. Book excerpt: Organisations in health care are moving into the information age since two or three decades. Never was the pace of this movement as fast as today. "Integrating Biomedical Information: from e-Cell to e-Patient", the title of this EFMI publication, indicates the broad spectrum of Medical Informatics. Both concepts in the title are new - the result of data collection, data processing and information analysis. It is expected this data and information to be the knowledge base for a better understanding of mankind and also to assist us in making information (evidence) based decisions in health care. We expect that this will give us a better perspective of the human body, its functions and that it will ultimately lead us to better health care. Recent developments in clinical terminology construction have brought together specialists from different disciplines, such as Medicine, Computer Science, Philosophy, and Linguistics. Different genres of clinical terminologies co-exist: the former distinction between formal terminologies, classifications, vocabularies, nomenclatures and thesauri is increasingly being challenged by the notion of "ontology". There are controversies between linguistic approaches (aiming at representing term meanings) and ontological ones (which strive for a representation of biomedical reality). There is also an increasing quest for "good practice" recommendations for biomedical terminologies.) This book is the third volume of the EFMI STC conferences. This series is a subseries of the MIR-conferences published by IOS Press.

Author : Yucong Duan
Publisher : Frontiers Media SA
ISBN 13 : 2889741362
Total Pages : 247 pages
Book Rating : 4.66/5 ( download)

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Download or read book Explainable Intelligent Processing of Biological Resources Integrating Data, Information, Knowledge, and Wisdom written by Yucong Duan and published by Frontiers Media SA. This book was released on 2022-01-21 with total page 247 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Author : Information Resources Management Association
Publisher : IGI Global
ISBN 13 : 146663605X
Total Pages : 1826 pages
Book Rating : 4.57/5 ( download)

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Download or read book Bioinformatics written by Information Resources Management Association and published by IGI Global. This book was released on 2013-03-31 with total page 1826 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Bioinformatics: Concepts, Methodologies, Tools, and Applications highlights the area of bioinformatics and its impact over the medical community with its innovations that change how we recognize and care for illnesses"--Provided by publisher.

Author : Zhipeng Cai
Publisher : Springer
ISBN 13 : 3642380360
Total Pages : 323 pages
Book Rating : 4.65/5 ( download)

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Download or read book Bioinformatics Research and Applications written by Zhipeng Cai and published by Springer. This book was released on 2013-05-13 with total page 323 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 9th International Symposium on Bioinformatics Research and Applications, ISBRA 2013, held in Charlotte, NC, USA, in May 2013. The 25 revised full papers presented together with 4 invited talks were carefully reviewed and selected from 46 submissions. The papers cover a wide range of biomedical databases and data integration, high-performance bio-computing, biomolecular imaging, high-throughput sequencing data analysis, bio-ontologies, molecular evolution, comparative genomics and phylogenomics, molecular modeling and simulation, pattern discovery and classification, computational proteomics, population genetics, data mining and visualization, software tools and applications.