Integrating Networks and Proteomics: Moving Forward Wilson Wen Bin Goh, Limsoon Wong  Trends in Biotechnology  Volume 34, Issue 12, Pages 951-959 (December 2016) DOI: 10.1016/j.tibtech.2016.05.015 Copyright © 2016 Elsevier Ltd Terms and Conditions

Figure 1 Key Figure: Schematic of Network Utilizations in Proteomics. (A) Traditional use of networks focuses more on the annotative and descriptive. (B) Networks can play a greater role in quantitative research, especially in the areas of drug-target discovery, diagnostics, and missing-protein prediction. Trends in Biotechnology 2016 34, 951-959DOI: (10.1016/j.tibtech.2016.05.015) Copyright © 2016 Elsevier Ltd Terms and Conditions

Figure 2 Standardization in Network-Based Proteomics (NBP). NBP relies on establishing standards for proteomics and network biology, overseen by the PSI and COMBINE consortia respectively. Adaptation rates are higher in proteomics because there are clear-cut data types/requirements at each level (dark arrows). It is less straightforward in networks (lighter arrows) because of the large variety of network data types and representation options (only some of the standards are shown here). Ultimately, the issue with networks is not about more data, but rather about extracting useful knowledge. For now, the use of functional units, for example complexes, is advocated. For NBP, exigent issues involve identifying gold-standard real expression data and networks, simulation strategies for exact performance evaluation, and evaluation criteria. Trends in Biotechnology 2016 34, 951-959DOI: (10.1016/j.tibtech.2016.05.015) Copyright © 2016 Elsevier Ltd Terms and Conditions