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Full Description
Large biological data, which are often noisy and high-dimensional, have become increasingly prevalent in biology and medicine. There is a real need for good training in statistics, from data exploration through to analysis and interpretation. This book provides an overview of statistical and dimension reduction methods for high-throughput biological data, with a specific focus on data integration. It starts with some biological background, key concepts underlying the multivariate methods, and then covers an array of methods implemented using the mixOmics package in R.
Features:
Provides a broad and accessible overview of methods for multi-omics data integration
Covers a wide range of multivariate methods, each designed to answer specific biological questions
Includes comprehensive visualisation techniques to aid in data interpretation
Includes many worked examples and case studies using real data
Includes reproducible R code for each multivariate method, using the mixOmics package
The book is suitable for researchers from a wide range of scientific disciplines wishing to apply these methods to obtain new and deeper insights into biological mechanisms and biomedical problems. The suite of tools introduced in this book will enable students and scientists to work at the interface between, and provide critical collaborative expertise to, biologists, bioinformaticians, statisticians and clinicians.
Contents
I Modern biology and multivariate analysis
1. Multi-omics and biological systems
2. The cycle of analysis
3. Key multivariate concepts and dimension reduction in mixOmics
4. Choose the right method for the right question in mixOmics
II mixOmics under the hood
5. Projection to Latent Structures
6. Visualisation for data integration
7. Performance assessment in multivariate analyses
III mixOmics in action
8. mixOmics: get started
9. Principal Component Analysis (PCA)
10. 10 Projection to Latent Structure (PLS)
11. Canonical Correlation Analysis (CCA)
12. PLS - Discriminant Analysis (PLS-DA)
13. N - data integration
14. P - data integration
15. Glossary of Terms
