Information-Theoretic Evaluation for Computational Biomedical Ontologies PDF Download
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Author: Wyatt Travis Clark
Publisher: Springer Science & Business Media
ISBN: 331904138X
Category : Computers
Languages : en
Pages : 50
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Book Description
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: Wyatt Travis Clark
Publisher: Springer Science & Business Media
ISBN: 331904138X
Category : Computers
Languages : en
Pages : 50
Get Book Here
Book Description
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: Bernadette Sharp
Publisher: Walter de Gruyter GmbH & Co KG
ISBN: 1501501283
Category : Technology & Engineering
Languages : en
Pages : 326
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Book Description
Peer reviewed articles from the Natural Language Processing and Cognitive Science (NLPCS) 2014 meeting in October 2014 workshop. The meeting fosters interactions among researchers and practitioners in NLP by taking a Cognitive Science perspective. Articles cover topics such as artificial intelligence, computational linguistics, psycholinguistics, cognitive psychology and language learning.
Author: J. K. Mandal
Publisher: Springer
ISBN: 8132222504
Category : Technology & Engineering
Languages : en
Pages : 878
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Book Description
The second international conference on INformation Systems Design and Intelligent Applications (INDIA – 2015) held in Kalyani, India during January 8-9, 2015. The book covers all aspects of information system design, computer science and technology, general sciences, and educational research. Upon a double blind review process, a number of high quality papers are selected and collected in the book, which is composed of two different volumes, and covers a variety of topics, including natural language processing, artificial intelligence, security and privacy, communications, wireless and sensor networks, microelectronics, circuit and systems, machine learning, soft computing, mobile computing and applications, cloud computing, software engineering, graphics and image processing, rural engineering, e-commerce, e-governance, business computing, molecular computing, nano-computing, chemical computing, intelligent computing for GIS and remote sensing, bio-informatics and bio-computing. These fields are not only limited to computer researchers but also include mathematics, chemistry, biology, bio-chemistry, engineering, statistics, and all others in which computer techniques may assist.
Author: Marie-Jeanne Lesot
Publisher: Springer Nature
ISBN: 3030501469
Category : Computers
Languages : en
Pages : 779
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Book Description
This three volume set (CCIS 1237-1239) constitutes the proceedings of the 18th International Conference on Information Processing and Management of Uncertainty in Knowledge-Based Systems, IPMU 2020, in June 2020. The conference was scheduled to take place in Lisbon, Portugal, at University of Lisbon, but due to COVID-19 pandemic it was held virtually. The 173 papers were carefully reviewed and selected from 213 submissions. The papers are organized in topical sections: homage to Enrique Ruspini; invited talks; foundations and mathematics; decision making, preferences and votes; optimization and uncertainty; games; real world applications; knowledge processing and creation; machine learning I; machine learning II; XAI; image processing; temporal data processing; text analysis and processing; fuzzy interval analysis; theoretical and applied aspects of imprecise probabilities; similarities in artificial intelligence; belief function theory and its applications; aggregation: theory and practice; aggregation: pre-aggregation functions and other generalizations of monotonicity; aggregation: aggregation of different data structures; fuzzy methods in data mining and knowledge discovery; computational intelligence for logistics and transportation problems; fuzzy implication functions; soft methods in statistics and data analysis; image understanding and explainable AI; fuzzy and generalized quantifier theory; mathematical methods towards dealing with uncertainty in applied sciences; statistical image processing and analysis, with applications in neuroimaging; interval uncertainty; discrete models and computational intelligence; current techniques to model, process and describe time series; mathematical fuzzy logic and graded reasoning models; formal concept analysis, rough sets, general operators and related topics; computational intelligence methods in information modelling, representation and processing.
Author: Ajith Abraham
Publisher: Springer
ISBN: 3642227147
Category : Computers
Languages : en
Pages : 744
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Book Description
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:
Publisher: Elsevier
ISBN: 0128114320
Category : Medical
Languages : en
Pages : 3421
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Book Description
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: Marcelo S. Reis
Publisher: Springer Nature
ISBN: 3031427157
Category : Science
Languages : en
Pages : 174
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Book Description
This book constitutes the proceedings of the 16th Brazilian Symposium on Bioinformatics on Advances in Bioinformatics and Computational Biology, BSB 2023, which took place in Curitiba, Brazil, in June 2023. The 11 full papers and 3 short papers presented in this volume were carefully reviewed and selected from 24 submissions. The papers focus on bioinformatics, computational biology, Biological Databases, Biological Networks, Cheminformatics, Evolutionary Genomics, Computational Proteomics, Systems Biology, Drug Design, Genomics, Machine Learning applications in Bioinformatics, Metagenomics, Molecular Docking and Modeling, Molecular Evolution and Phylogenetics, Protein Structure and Modeling, Proteomics, Transcriptomics, Single-Cell Analysis, Workflows in Bioinformatics.
Author: Robert Arp
Publisher: MIT Press
ISBN: 0262527812
Category : Science
Languages : en
Pages : 245
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Book Description
An introduction to the field of applied ontology with examples derived particularly from biomedicine, covering theoretical components, design practices, and practical applications. In the era of “big data,” science is increasingly information driven, and the potential for computers to store, manage, and integrate massive amounts of data has given rise to such new disciplinary fields as biomedical informatics. Applied ontology offers a strategy for the organization of scientific information in computer-tractable form, drawing on concepts not only from computer and information science but also from linguistics, logic, and philosophy. This book provides an introduction to the field of applied ontology that is of particular relevance to biomedicine, covering theoretical components of ontologies, best practices for ontology design, and examples of biomedical ontologies in use. After defining an ontology as a representation of the types of entities in a given domain, the book distinguishes between different kinds of ontologies and taxonomies, and shows how applied ontology draws on more traditional ideas from metaphysics. It presents the core features of the Basic Formal Ontology (BFO), now used by over one hundred ontology projects around the world, and offers examples of domain ontologies that utilize BFO. The book also describes Web Ontology Language (OWL), a common framework for Semantic Web technologies. Throughout, the book provides concrete recommendations for the design and construction of domain ontologies.
Author: Paul Buitelaar
Publisher: IOS Press
ISBN: 9781586035235
Category : Computers
Languages : en
Pages : 188
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Book Description
The latest title in Black Library's premium line. Perturabo - master of siegecraft, and executioner of Olympia. Long has he lived in the shadow of his more favoured primarch brothers, frustrated by the mundane and ignominious duties which regularly fall to his Legion. When Fulgrim offers him the chance to lead an expedition in search of an ancient and destructive xenos weapon, the Iron Warriors and the Emperor's Children unite and venture deep into the heart of the great warp-rift known only as 'the Eye'. Pursued by a ragged band of survivors from Isstvan V and the revenants of a dead eldar world, they must work quickly if they are to unleash the devastating power of the Angel Exterminatus
Author: Thora Tenbrink
Publisher: Springer
ISBN: 331901790X
Category : Computers
Languages : en
Pages : 549
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Book Description
This book constitutes the proceedings of the 11th International Conference on Spatial Information Theory, COSIT 2013, held in Scarborough, UK, in September 2013. The 28 papers presented in this book were carefully reviewed and selected from 62 full paper submissions. The following topics are addressed: spatial change, wayfinding and assistance, representing spatial data, handling language data, spatial language and computation, spatial ontology, spatial reasoning and representation.
