Fundamentals of Advanced Omics Technologies: From Genes to Metabolites covers the fundamental aspects of the new instrumental and methodological developments in omics technologies, including those related to genomics, transcriptomics, epigenetics, proteomics and metabolomics, as well as other omics approaches such as glycomics, peptidomics and foodomics. The principal applications are presented in the following complementary volume.
The chapters discuss in detail omics technologies, DNA microarray analysis, next-generation sequencing technologies, genome-wide analysis of methylation and histone modifications, emerging nanotechniques in proteomics, imaging mass spectrometry in proteomics, recent quantitative proteomics approaches, and advances in high-resolution NMR-based metabolomics, as well as MS-based non-targeted metabolomics and metabolome analysis by CE-MS, global glycomics analyses, foodomics, and high resolution analytical tools for quantitative peptidomics. Key aspects related to chemometrics, bioinformatics, data treatment, data integration and systems biology, deep-sequencing data analysis, statistical approaches for the analysis of microarray data, the integration of transcriptome and metabolome data and computational approaches for visualization and integration of omics data are also covered.
- Covers the latest advances in instrumentation, experimental design, sample preparation, and data analysis
- Provides thorough explanations and descriptions of specific omics technologies
- Describes advanced tools and methodologies for data pretreatment, storage, curation and analysis, as well as data integration
Genomics, Transcriptomics and Epigenetics 1. DNA Microarray Technology: Overview and Current Status, A. Sánchez-Plá 2. Challenges and Future Trends in DNA Microarray Analysis, A. Sedighi, P.C.H. Li 3. Next Generation Sequencing: New Tools to Solve Old Challenges, I. Gobernado, A. Sanchez-Herranz, A. Jimenez-Escrig 4. Omics Tools for the Genome-Wide Analysis of Methylation and Histone Modifications, Josep C. Jiménez-Chillarón, Rubén Díaz, Marta Ramón-Krauel Proteomics 5. An Overview of Quantitative Proteomic Approaches, A.J. McShane, V. Farrokhi, R. Nemati, S. Li, X. Yao 6. Emerging Nanotechniques in Proteomics, N. Dasilva, M. Gonzalez-Gonzalez, P. Diez, R. Jara-Acevedo, L. Lourido, J.M. Sayagues, A. Orfao, M. Fuentes Ch. 7. Mass Spectrometry Imaging in Proteomics and Metabolomics, B. Balluff, R.J. Carreira, L.A. McDonnell Metabolomics 8. Advances in NMR Based Metabolomics, G.A. Nagana Gowda, D. Raftery 9. The Role of Mass Spectrometry in Non-Targeted Metabolomics, H.G. Gika, I.D. Wilson, G.A. Theodoridis 10. Direct Mass Spectrometry-Based Approaches in Metabolomics, C. Ibáñez, V. García-Cañas, A. Valdés, C. Simó Other Omics Approaches 11. Global Glycomics Analysis: Methodologies and Challenges, N.W. Stebbins, R. Sasisekharan 12. Applications of Glycan Microarrays to Functional Glycomics, Y.Yu, X. Song, D.F. Smith, R.D. Cummings 13. High Resolution Analytical Tools for Quantitative Peptidomics, S. Dasgupta, L.D. Fricker Data Treatment, Integration and Systems Biology 14. Gene Expression Analysis and Profiling of Microarrays Data and RNA-Sequencing Data, J. De Las Rivas, S. Aibar, B. Roson 15. Analysis of Deep Sequencing Data: Insights and Challenges, J.W. Malcom, J.H. Malone 16. Bioinformatic Approaches to Increase Proteome Coverage, F.M. Mancuso, S. Cappadona, E. Sabidó 17. Transcriptome and Metabolome Data Integration
Technical Requisites for Successful Data Fusion and Visualization, M. Witting, P. Schmitt-Kopplin 18. Computational Approaches for Visualization and Integration of Omics Data, V. Sehgal, T.J Moss, P.T. Ram