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Biomedical Literature Mining

  • Book
  • © 2014

Overview

Editors:
  1. Vinod D. Kumar

    1. GlaxoSmithKline, King of Prussia, USA

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  2. Hannah Jane Tipney

    1. GlaxoSmithKline, Hitchin, United Kingdom

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 1159)

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Table of contents (15 protocols)

  1. Front Matter

    Pages i-xii
    Download chapter PDF

  2. Introduction to Biomedical Literature Text Mining: Context and Objectives

    • Jeffrey D. Saffer, Vicki L. Burnett
    Pages 1-7

  3. Principles of Text Mining: Getting Started

    1. Front Matter

      Pages 9-9
      Download chapter PDF

    2. Accessing Biomedical Literature in the Current Information Landscape

      • Ritu Khare, Robert Leaman, Zhiyong Lu
      Pages 11-31

    3. Mapping of Biomedical Text to Concepts of Lexicons, Terminologies, and Ontologies

      • Michael Bada
      Pages 33-45

    4. Text Mining for Drug–Drug Interaction

      • Heng-Yi Wu, Chien-Wei Chiang, Lang Li
      Pages 47-75

    5. Biological Information Extraction and Co-occurrence Analysis

      • Georgios A. Pavlopoulos, Vasilis J. Promponas, Christos A. Ouzounis, Ioannis Iliopoulos
      Pages 77-92

  4. Seeking New Biology by Unlocking “Hidden” Information

    1. Front Matter

      Pages 93-93
      Download chapter PDF

    2. Roles for Text Mining in Protein Function Prediction

      • Karin M. Verspoor
      Pages 95-108

    3. Functional Molecular Units for Guiding Biomarker Panel Design

      • Andreas Heinzel, Irmgard Mühlberger, Raul Fechete, Bernd Mayer, Paul Perco
      Pages 109-133

    4. Mining Biological Networks from Full-Text Articles

      • Jan Czarnecki, Adrian J. Shepherd
      Pages 135-145

    5. Scientific Collaboration Networks Using Biomedical Text

      • Siddhartha R. Jonnalagadda, Philip S. Topham, Edward J. Silverman, Ryan G. Peeler
      Pages 147-157

    6. Predicting Future Discoveries from Current Scientific Literature

      • Ingrid Petrič, Bojan Cestnik
      Pages 159-168

  5. From Electronic Biology to Drug Discovery and Development

    1. Front Matter

      Pages 169-169
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    2. Mining Emerging Biomedical Literature for Understanding Disease Associations in Drug Discovery

      • Deepak K. Rajpal, Xiaoyan A. Qu, Johannes M. Freudenberg, Vinod D. Kumar
      Pages 171-206

    3. Integrative Literature and Data Mining to Rank Disease Candidate Genes

      • Chao Wu, Cheng Zhu, Anil G. Jegga
      Pages 207-226

    4. Role of Text Mining in Early Identification of Potential Drug Safety Issues

      • Mei Liu, Yong Hu, Buzhou Tang
      Pages 227-251

    5. Systematic Drug Repurposing Through Text Mining

      • Luis B. Tari, Jagruti H. Patel
      Pages 253-267

    6. Mining the Electronic Health Record for Disease Knowledge

      • Elizabeth S. Chen, Indra Neil Sarkar
      Pages 269-286

  6. Back Matter

    Pages 287-288
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Keywords

About this book

Biomedical Literature Mining, discusses the multiple facets of modern biomedical literature mining and its many applications in genomics and systems biology. The volume is divided into three sections focusing on information retrieval, integrated text-mining approaches and domain-specific mining methods. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and key tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Biomedical Literature Mining is designed as a useful bioinformatics resource in biomedical literature text mining for both those long experienced in or entirely new to, the field.

Editors and Affiliations

  • GlaxoSmithKline, King of Prussia, USA

    Vinod D. Kumar

  • GlaxoSmithKline, Hitchin, United Kingdom

    Hannah Jane Tipney

Bibliographic Information

  • Book Title: Biomedical Literature Mining

  • Editors: Vinod D. Kumar, Hannah Jane Tipney

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-0709-0

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media New York 2014

  • Hardcover ISBN: 978-1-4939-0708-3Published: 30 April 2014

  • Softcover ISBN: 978-1-4939-5429-2Published: 24 September 2016

  • eBook ISBN: 978-1-4939-0709-0Published: 30 April 2014

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XII, 288

  • Number of Illustrations: 15 b/w illustrations, 36 illustrations in colour

  • Topics: Bioinformatics, Systems Biology, Computer Appl. in Life Sciences

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