Part I Platforms for Molecular Data Acquisition and Analysis 1
1 Clinical Data Collection and Patient Phenotyping 3
2 Biobanking, Ethics, and Relevant Legal Issues 13
3 Nephrogenetics and Nephrodiagnostics: Contemporary Molecular Approaches in the Genomics Era 26
4 The Use of Transcriptomics in Clinical Applications 49
5 miRNA Analysis 67
6 Proteomics of Body Fluids 93
7 Peptidomics of Body Fluids 113
8 Tissue Proteomics 129
9 Tissue MALDI Imaging 156
10 Metabolomics of Body Fluids 173
11 Statistical Inference in High]Dimensional Omics Data 196
12 Epidemiological Applications in ]Omics Approaches 207
Part II Progressing Towards Systems Medicine 215
13 Introduction into the Concept of Systems Medicine 217
14 Knowledge Discovery and Data Mining 233
15 -Omics and Clinical Data Integration 248
16 Generation of Molecular Models and Pathways 274
17 Database Creation and Utility 286
Part III Test Cases CKD and Bladder Carcinoma 301
18 Kidney Function, CKD Causes, and Histological Classification 303
19 CKD: Diagnostic and Other Clinical Needs 319
20 Molecular Model for CKD 327
21 Application of Omics and Systems Medicine in Bladder Cancer 347
Introduces readers to the state of the art of omics platforms and all aspects of omics approaches for clinical applications
This book presents different high throughput omics platforms used to analyze tissue, plasma, and urine. The reader is introduced to state of the art analytical approaches (sample preparation and instrumentation) related to proteomics, peptidomics, transcriptomics, and metabolomics. In addition, the book highlights innovative approaches using bioinformatics, urine miRNAs, and MALDI tissue imaging in the context of clinical applications. Particular emphasis is put on integration of data generated from these different platforms in order to uncover the molecular landscape of diseases. The relevance of each approach to the clinical setting is explained and future applications for patient monitoring or treatment are discussed.
Integration of omics Approaches and Systems Biology for Clinical Applications presents an overview of state of the art omics techniques. These methods are employed in order to obtain the comprehensive molecular profile of biological specimens. In addition, computational tools are used for organizing and integrating these multi-source data towards developing molecular models that reflect the pathophysiology of diseases. Investigation of chronic kidney disease (CKD) and bladder cancer are used as test cases. These represent multi-factorial, highly heterogeneous diseases, and are among the most significant health issues in developed countries with a rapidly aging population. The book presents novel insights on CKD and bladder cancer obtained by omics data integration as an example of the application of systems biology in the clinical setting.
Describes a range of state of the art omics analytical platforms
Covers all aspects of the systems biology approachfrom sample preparation to data integration and bioinformatics analysis
Contains specific examples of omics methods applied in the investigation of human diseases (Chronic Kidney Disease, Bladder Cancer)
Integration of omics Approaches and Systems Biology for Clinical Applications will appeal to a wide spectrum of scientists including biologists, biotechnologists, biochemists, biophysicists, and bioinformaticians working on the different molecular platforms. It is also an excellent text for students interested in these fields.
ANTONIA VLAHOU is Co-director of the Proteomics Research Unit at the Biomedical Research Foundation, Academy of Athens.
FULVIO MAGNI is a Full Professor at the Faculty of Medicine and Surgery, University Milano-Bicocca.
HARALD MISCHAK is Professor for Proteomics and Systems Medicine at the University of Glasgow and is the Director of Mosaiques diagnostics.
JEROME ZOIDAKIS is a Research Scientist at the Proteomics Research Unit at the Biomedical Research Foundation, Academy of Athens.