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Bioinformatics for Omics Data Bernd Mayer

Bioinformatics for Omics Data By Bernd Mayer

Bioinformatics for Omics Data by Bernd Mayer


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Summary

Presenting an area of research that intersects with and integrates diverse disciplines, including molecular biology, applied informatics, and statistics, among others, Bioinformatics for Omics Data: Methods and Protocols collects contributions from expert researchers in order to provide practical guidelines to this complex study.

Bioinformatics for Omics Data Summary

Bioinformatics for Omics Data: Methods and Protocols by Bernd Mayer

Presenting an area of research that intersects with and integrates diverse disciplines, including molecular biology, applied informatics, and statistics, among others, Bioinformatics for Omics Data: Methods and Protocols collects contributions from expert researchers in order to provide practical guidelines to this complex study. Divided into three convenient sections, this detailed volume covers central analysis strategies, standardization and data-management guidelines, and fundamental statistics for analyzing Omics profiles, followed by a section on bioinformatics approaches for specific Omics tracks, spanning genome, transcriptome, proteome, and metabolome levels, as well as an assortment of examples of integrated Omics bioinformatics applications, complemented by case studies on biomarker and target identification in the context of human disease. Written in the highly successful Methods in Molecular Biology (TM) series format, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls.

Authoritative and accessible, Bioinformatics for Omics Data: Methods and Protocols serves as an ideal guide to scientists of all backgrounds and aims to convey the appropriate sense of fascination associated with this research field.

Table of Contents

Part I: Omics Bioinformatics Fundamentals

1. Omics Technologies, Data, and Bioinformatics Principles

Maria V. Schneider and Sandra Orchard

2. Data Standards for Omics Data: The Basis of Data Sharing and Reuse

Stephen A. Chervitz, Eric W. Deutsch, Dawn Field, Helen Parkinson, John Quackenbush, Phillipe Rocca-Serra, Susanna-Assunta Sansone, Christian J. Stoeckert, Jr., Chris F. Taylor, Ronald Taylor, and Catherine A. Ball

3. Omics Data Management and Annotation

Arye Harel, Irina Dalah, Shmuel Pietrokovski, Marilyn Safran, and Doron Lancet

4. Data and Knowledge Management in Cross-Omics Research Projects

Martin Wiesinger, Martin Haiduk, Marco Behr, Henrique Lopes de Abreu Madeira, Gernot Gloeckler, Paul Perco, and Arno Lukas

5. Statistical Analysis Principles for Omics Data

Daniela Dunkler, Fatima Sanchez-Cabo, and Georg Heinze

6. Statistical Methods and Models for Bridging Omics Data Levels

Simon Rogers

7. Analysis of Time Course Omics Datasets

Martin G. Grigorov

8. The Use and Abuse of -Omes

Sonja J. Prohaska and Peter F. Stadler

Part II: Omics Data and Analysis Tracks

9. Computational Analysis of High Throughput Sequencing Data

Steve Hoffmann

10. Analysis of Single Nucleotide Polymorphisms in Case-Control Studies

Yonghong Li, Dov Shiffman, and Rainer Oberbauer

11. Bioinformatics for Copy Number Variation Data

Melissa Warden, Roger Pique-Regi, Antonio Ortega, and Shahab Asgharzadeh

12. Processing ChIP-chip Data: From the Scanner to the Browser

Pierre Cauchy, Touati Benoukraf, and Pierre Ferrier

13. Insights Into Global Mechanisms and Disease by Gene Expression Profiling

Fatima Sanchez-Cabo, Johannes Rainer, Ana Dopazo, Zlatko Trajanoski, and Hubert Hackl

14. Bioinformatics for RNomics

Kristin Reiche, Katharina Schutt, Kerstin Ullmann, Friedemann Horn, and Joerg Hackermuller

15. Bioinformatics for Qualitative and Quantitative Proteomics

Chris Bielow, Clemens Gropl, Oliver Kohlbacher, and Knut Reinert

16. Bioinformatics for Mass Spectrometry-Based Metabolomics

David P. Enot, Bernd Haas, and Klaus M. Weinberger

Part III: Applied Omics Bioinformatics

17. Computational Analysis Workflows for Omics Data Interpretation

Irmgard Muhlberger, Julia Wilflingseder, Andreas Bernthaler, Raul Fechete, Arno Lukas, and Paul Perco

18. Integration, Warehousing, and Analysis Strategies of Omics Data

Srinubabu Gedela

19. Integrating Omics Data for Signaling Pathways, Interactome Reconstruction, and Functional Analysis

Paolo Tieri, Alberto de la Fuente, Alberto Termanini, and Claudio Franceschi

20. Network Inference from Time-Dependent Omics Data

Paola Lecca, Thanh-Phuong Nguyen, Corrado Priami, and Paola Quaglia

21. Omics and Literature Mining

Vinod Kumar and Craig Volker

22. Omics-Bioinformatics in the Context of Clinical Data

Gert Mayer, Georg Heinze, Harald Mischak, Merel R. Hellemons, Hiddo J. Lambers Heerspink, Stephan J.L. Bakker, Dick de Zeeuw, Martin Haiduk, Peter Rossing, and Rainer Oberbauer

23. Omics-Based Identification of Pathophysiological Processes

Hiroshi Tanaka and Soichi Ogishima

24. Data Mining Methods in Omics-Based Biomarker Discovery

Fan Zhang and Jake Y. Chen

25. Integrated Bioinformatics Analysis for Cancer Target Identification

Yongliang Yang, S. James Adelstein, and Amin I. Kassis

26. Omics-Based Molecular Target and Biomarker Identification

Zhang-Zhi Hu, Hongzhan Huang, Cathy H. Wu, Mira Jung, Anatoly Dritschilo, Anna T. Riegel, and Anton Wellstein

Additional information

NLS9781493957804
9781493957804
1493957805
Bioinformatics for Omics Data: Methods and Protocols by Bernd Mayer
New
Paperback
Humana Press Inc.
2016-08-23
584
N/A
Book picture is for illustrative purposes only, actual binding, cover or edition may vary.
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