Section 2 – Machines for systems biology – Roy Goodacre 4 chapters explaining the workings of four of the most important measurement techniques for systems biology: Mass spectrometry Microscopy Spectroscopy

Section 3 – Nucleic acids and systems biology – James Adaye 4 Chapters on DNA sequencing, Arrays studies, PCR, deep sequencing

Section 4 - Protein production and quantification for Systems Biology –Naglis Malys and Kathleen Carroll Chapter 1: Quantification of proteins and their modifications using QconCAT technology  Chapter 2: Mass spectrometric based quantitative proteomics using SILAC Chapter 3: Nucleic Acid Programmable Protein Array (NAPPA) - a just-in-time multiplexed protein expression and purification platform Chapter 4: Economical high throughput protein production and purification in prokaryotic and eukaryotic systems Chapter 5: Systems biology of recombinant protein production using Bacillus megaterium Chapter 6: Protein production in S. cerevisiae for systems biology studies

Section 5 – Enzymatic Assays in Systems Biology Research Farid Khan, Hanan Messiha and Malgorzata Adamczyk Chapter 1: Enzymatic Assays in Systems Biology Research: Strategies and challenges.  Chapter 2: Real-time kinetic assay technologies for characterising enzymes in metabolic pathways.  Chapter 3: A bottom-up approach towards a full quantitative description of yeast energy metabolism: A systematic approach for estimating the kinetic parameters of isoenzymes under in vivo like conditions  Chapter 4: A top-down approach for measuring enzyme kinetics in cell lysates: mimicking an in vivo environment. 

Section 6 – Sample preparation in Metabolomics Studies –Warwick Dunn & Catherine Winder Chapter 1 - The use of continuous culture in systems biology investigations  Chapter 2 - Metabolomic studies of yeast – methods for sample collection in profiling and quantitation studies  Chapter 3 - The role of metabolomics in plant studies – views on sampling and data acquisition  Chapter 4 - The study of mammaliam metabolism – how, when and why  Chapter 5 - The study of the environment from a metabolomic perspective 

Section 7 – Mathematical modelling in Systems Biology –Kieran Smallbone & Evangelos Simeonidis Chapter 1: Building a kinetic model of a metabolic pathway  Chapter 2: Making systems biology models reusable: the role of standards and biological semantics  Chapter 3: From reaction networks to information flow - using modular response analysis to track the routes of information in large signalling networks  Chapter 4: The mathematics of Metabolic Control Analysis  Chapter 5: Constraint-based analysis of biochemical networks  

Section 8 – Understanding systems biology (Hans Westerhoff) 1. Elementary mode analysis 2. Flux analysis 3. Flux balance analysis 4. Metabolic control analysis 5. Supply-demand analysis 6. Modular kinetic analysis 7. Regulation Analysis 8. Noise and heterogeneity

Section 9 – Dealing with Systems Biology Research: – Neil W. Hayes Chapter 1 - Crossing the Boundaries; Delivering Interdisciplinary Science in a Disciplinary World