![]() We prepared 158 gold standard positive data and 844 gold standard negative data based on the functional information from Gene Ontology consortium. To assess the accuracy of our prediction, the gold standard positive and negative data sets were constructed. Finally, we could define 2716 highly reliable scaffold protein candidates and their characterized functional features. Resultsįrom a total of 10,419 basic scaffold protein candidates in protein interactomes, we classified them into three classes according to the structural evidences for scaffolding, such as domain architectures, domain interactions and protein complexes. In this paper, we will suggest a systematic approach to predict massive scaffold proteins from interactomes and to characterize the roles of scaffold proteins comprehensively. However, there were limitations in finding diverse types of scaffold proteins because their criteria were restricted to the classical scaffold proteins. ![]() Despite being highlighted as the regulatory roles of dozens of scaffold proteins, there was only one known computational approach carried out so far to find scaffold proteins from interactomes. Identification of scaffold proteins and the study of their molecular mechanisms can open a new aspect of cellular systemic regulation and the results can be applied in the field of medicine and engineering. Scaffold proteins are known for being crucial regulators of various cellular functions by assembling multiple proteins involved in signaling and metabolic pathways.
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