Abstract
Genomics is based on the ability to determine the transcriptome, proteome, and metabolome of a cell. These technologies only have added value when they are integrated and based on robust and reproducible workflows. This chapter describes the experimental design, sampling, sample pretreatment, data evaluation, integration, and interpretation. The actual generation of the data is not covered in this chapter since it is highly depended on available equipment and infrastructure.
The enormous amount of data generated by these technologies are integrated and interpreted inorder to generate leads for strain and process improvement. Biostatistics are becoming very important for the whole work flow therefore, some general recommendations how to set up experimental design and how to use biostatistics in enhancing the quality of the data and the selection of biological relevant leads for strain engineering and target identification are described.
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Acknowledgements
We sincerely thank Prof. Dr. Uwe Sauer and his group, especially Stefan Christen from ETH Zurich Institute of Molecular Systems Biology Zurich, Switzerland, for their time and help in starting the metabolomics work. Equally, we thank Prof. Dr. Joseph J. Heijnen and his group especially Dr. Lodewijk de Jonge from Department of Biotechnology, Faculty of Applied Sciences, Technical University of Delft, The Netherlands, for their contribution and collaboration on earlier works on metabolomics.
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Stam, H. et al. (2013). Sample Preparation and Biostatistics for Integrated Genomics Approaches. In: Alper, H. (eds) Systems Metabolic Engineering. Methods in Molecular Biology, vol 985. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-299-5_19
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DOI: https://doi.org/10.1007/978-1-62703-299-5_19
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