Genome-Scale Brain Metabolic Networks as Scaffolds for the Systems Biology of Neurodegenerative Diseases: Mapping Metabolic Alterations

  • Emrah Özcan
  • Tunahan ÇakırEmail author
Part of the Advances in Neurobiology book series (NEUROBIOL, volume 21)


Systems-based investigation of diseases requires integrated analysis of cellular networks and high-throughput data of gene products. The use of genome-scale metabolic networks for such integration has led to the elucidation of cellular mechanisms for several cell types from microorganisms to plants. It has become easier and cheaper to generate high-throughput data over years in the form of transcriptome, proteome and metabolome. This has tremendously improved the quality and quantity of information extracted from such data enabling the documentation of active pathways and reactions in cell metabolism. A number of omics-based datasets for several neurodegenerative diseases are now available in public repositories. This increases the potential of using genome-scale brain metabolic networks as a scaffold for this type of data to map metabolic alterations for the purpose of elucidating disease mechanisms and for the diagnosis and treatment of such disorders. This chapter first reviews omics data collected for neurodegenerative diseases to map their effect on metabolism. Later, the potential for genome-scale metabolic modeling of such data is reviewed and discussed in light of recently reconstructed brain metabolic networks at genome-scale.


Genome-scale metabolic networks Constraint-based modeling of metabolism Metabolic pathway enrichment Reporter pathway analysis Transcriptome Metabolome Neurodegenerative diseases Alzheimer Parkinson 



This work was financially supported by TUBITAK, The Scientific and Technological Research Council of Turkey (Project Code: 315S302), and by The Turkish Academy of Sciences–Outstanding Young Scientists Award Program (TUBA-GEBIP).

Conflict of Interest

The authors declare no conflict of interest.


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Authors and Affiliations

  1. 1.Department of BioengineeringGebze Technical UniversityGebzeTurkey

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