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  • Book
  • © 2016

Data Mining Techniques for the Life Sciences

  • 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 1415)

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eBook USD 119.00
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  • ISBN: 978-1-4939-3572-7
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  • Tax calculation will be finalised during checkout
Softcover Book USD 159.99
Price excludes VAT (USA)
Hardcover Book USD 219.99
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Table of contents (27 protocols)

  1. Front Matter

    Pages i-xiii
  2. Databases

    1. Front Matter

      Pages 1-1
    2. Protein Structure Databases

      • Roman A. Laskowski
      Pages 31-53
    3. The MIntAct Project and Molecular Interaction Databases

      • Luana Licata, Sandra Orchard
      Pages 55-69
    4. Classification and Exploration of 3D Protein Domain Interactions Using Kbdock

      • Anisah W. Ghoorah, Marie-Dominique Devignes, Malika Smaïl-Tabbone, David W. Ritchie
      Pages 91-105
    5. Data Mining of Macromolecular Structures

      • Bart van Beusekom, Anastassis Perrakis, Robbie P. Joosten
      Pages 107-138
    6. Criteria to Extract High-Quality Protein Data Bank Subsets for Structure Users

      • Oliviero Carugo, Kristina Djinović-Carugo
      Pages 139-152
    7. Homology-Based Annotation of Large Protein Datasets

      • Marco Punta, Jaina Mistry
      Pages 153-176
  3. Computational Techniques

    1. Front Matter

      Pages 177-177
    2. Promises and Pitfalls of High-Throughput Biological Assays

      • Greg Finak, Raphael Gottardo
      Pages 225-243
    3. Optimizing RNA-Seq Mapping with STAR

      • Alexander Dobin, Thomas R. Gingeras
      Pages 245-262
  4. Prediction Methods

    1. Front Matter

      Pages 263-263
    2. Predicting Conformational Disorder

      • Philippe Lieutaud, François Ferron, Sonia Longhi
      Pages 265-299
    3. Classification of Protein Kinases Influenced by Conservation of Substrate Binding Residues

      • Chintalapati Janaki, Narayanaswamy Srinivasan, Malini Manoharan
      Pages 301-313

About this book

High throughput sequencing (HTS) technologies have conquered the genomics and epigenomics worlds. The applications of HTS methods are wide, and can be used to sequence everything from whole or partial genomes, transcriptomes, non-coding RNAs, ribosome profiling, to single-cell sequencing. Having such diversity of alternatives, there is a demand for information by research scientists without experience in HTS that need to choose the most suitable  methodology or combination of platforms  and to define their experimental designs to achieve their specific objectives. Field Guidelines for Genetic Experimental Designs in High-Throughput Sequencing

Keywords

  • protein-protein interactions
  • align RNA sequences
  • thermodynamics
  • “Kbdock” protein domain structure database
  • PDB_REDO databank
  • protein crystallizability

Reviews

“The style of the book and the assortment of topics which are presented make it accessible to a wide range of audiences, from undergraduates to established researchers, and from a variety of backgrounds, biologists, chemists, bioinformaticians. This collection of articles highlighting the state of the art for protein analyses, can also be used as a brief yet thorough starting point for post-graduate projects.” (Irina Ioana Mohorianu, zbMATH 1353.92002, 2017)

Editors and Affiliations

  • Max F. Perutz Laboratories GmbH, Universität Wien, Wien, Austria

    Oliviero Carugo

  • Technology and Research (A*STAR), Agency for Science, Singapore, Singapore

    Frank Eisenhaber

Bibliographic Information

  • Book Title: Data Mining Techniques for the Life Sciences

  • Editors: Oliviero Carugo, Frank Eisenhaber

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-3572-7

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media New York 2016

  • Hardcover ISBN: 978-1-4939-3570-3

  • Softcover ISBN: 978-1-4939-8081-9

  • eBook ISBN: 978-1-4939-3572-7

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 2

  • Number of Pages: XIII, 552

  • Number of Illustrations: 13 b/w illustrations, 84 illustrations in colour

  • Topics: Bioinformatics

Buying options

eBook USD 119.00
Price excludes VAT (USA)
  • ISBN: 978-1-4939-3572-7
  • Instant PDF download
  • Readable on all devices
  • Own it forever
  • Exclusive offer for individuals only
  • Tax calculation will be finalised during checkout
Softcover Book USD 159.99
Price excludes VAT (USA)
Hardcover Book USD 219.99
Price excludes VAT (USA)