Book Volume 939 2013

Data Mining for Systems Biology

Methods and Protocols

Editors:

ISBN: 978-1-62703-106-6 (Print) 978-1-62703-107-3 (Online)

Table of contents (17 protocols)

  1. Front Matter

    Pages i-xii

  2. No Access

    Protocol

    Pages 1-8

    Dense Module Enumeration in Biological Networks

  3. No Access

    Protocol

    Pages 9-20

    Discovering Interacting Domains and Motifs in Protein–Protein Interactions

  4. No Access

    Protocol

    Pages 21-34

    Global Alignment of Protein–Protein Interaction Networks

  5. No Access

    Protocol

    Pages 35-45

    Structure Learning for Bayesian Networks as Models of Biological Networks

  6. No Access

    Protocol

    Pages 47-58

    Supervised Inference of Gene Regulatory Networks from Positive and Unlabeled Examples

  7. No Access

    Protocol

    Pages 59-67

    Mining Regulatory Network Connections by Ranking Transcription Factor Target Genes Using Time Series Expression Data

  8. No Access

    Protocol

    Pages 69-85

    Identifying Pathways of Coordinated Gene Expression

  9. No Access

    Protocol

    Pages 87-95

    Mining Frequent Subtrees in Glycan Data Using the Rings Glycan Miner Tool

  10. No Access

    Protocol

    Pages 97-113

    Chemogenomic Approaches to Infer Drug–Target Interaction Networks

  11. No Access

    Protocol

    Pages 115-140

    Localization Prediction and Structure-Based In Silico Analysis of Bacterial Proteins: With Emphasis on Outer Membrane Proteins

  12. No Access

    Protocol

    Pages 141-181

    Analysis Strategy of Protein–Protein Interaction Networks

  13. No Access

    Protocol

    Pages 183-200

    Data Mining in the MetaCyc Family of Pathway Databases

  14. No Access

    Protocol

    Pages 201-213

    Gene Set/Pathway Enrichment Analysis

  15. No Access

    Protocol

    Pages 215-232

    Construction of Functional Linkage Gene Networks by Data Integration

  16. No Access

    Protocol

    Pages 233-251

    Genome-Wide Association Studies

  17. No Access

    Protocol

    Pages 253-261

    Viral Genome Analysis and Knowledge Management

  18. No Access

    Protocol

    Pages 263-275

    Molecular Network Analysis of Diseases and Drugs in KEGG

  19. Back Matter

    Pages 277-279