Gustafsson, Mika3; Nestor, Colm E.3; Zhang, Huan3; Barabasi, Albert-Laszlo11; Baranzini, Sergio5; Brunak, Søren1; Chung, Kian Fan12; Federoff, Howard J.7; Gavin, Anne-Claude8; Meehan, Richard R.9; Picotti, Paola10; Pujana, Miguel Angel10; Rajewsky, Nikolaus10; Smith, Kenneth G. C.10; Sterk, Peter J.10; Villoslada, Pablo10; Benson, Mikael10
1 Department of Systems Biology, Technical University of Denmark2 Center for Biological Sequence Analysis, Department of Systems Biology, Technical University of Denmark3 Linköping University4 Northeastern University5 University of California, San Francisco6 Imperial College London7 Georgetown University Medical Center8 European Molecular Biological Laboratory9 University of Edinburgh10 unknown11 Northeastern University12 Imperial College London
Many common diseases, such as asthma, diabetes or obesity, involve altered interactions between thousands of genes. High-throughput techniques (omics) allow identification of such genes and their products, but functional understanding is a formidable challenge. Network-based analyses of omics data have identified modules of disease-associated genes that have been used to obtain both a systems level and a molecular understanding of disease mechanisms. For example, in allergy a module was used to find a novel candidate gene that was validated by functional and clinical studies. Such analyses play important roles in systems medicine. This is an emerging discipline that aims to gain a translational understanding of the complex mechanisms underlying common diseases. In this review, we will explain and provide examples of how network-based analyses of omics data, in combination with functional and clinical studies, are aiding our understanding of disease, as well as helping to prioritize diagnostic markers or therapeutic candidate genes. Such analyses involve significant problems and limitations, which will be discussed. We also highlight the steps needed for clinical implementation.