Contextualized Protein-Protein Interactions

Anthony Federico; Stefano Monti

doi:10.1016/j.patter.2020.100153

Contextualized Protein-Protein Interactions

Patterns (N Y). 2020 Nov 20;2(1):100153. doi: 10.1016/j.patter.2020.100153. eCollection 2021 Jan 8.

Authors

Anthony Federico^{1

2}, Stefano Monti^{1

2}

Affiliations

¹ Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA 02118, USA.
² Bioinformatics Program, Boston University, Boston, MA 02215, USA.

Abstract

Protein-protein interaction (PPI) databases are an important bioinformatics resource, yet existing literature-curated databases usually represent cell-type-agnostic interactions, which is at variance with our understanding that protein dynamics are context specific and highly dependent on their environment. Here, we provide a resource derived through data mining to infer disease- and tissue-relevant interactions by annotating existing PPI databases with cell-contextual information extracted from reporting studies. This resource is applicable to the reconstruction and analysis of disease-centric molecular interaction networks. We have made the data and method publicly available and plan to release scheduled updates in the future. We expect these resources to be of interest to a wide audience of researchers in the life sciences.

Keywords: context-relevant PPI; network biology; protein-protein interaction.

Abstract

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