title: Studying protein-protein interactions: progress, pitfalls and solutions.
abstract: Signalling proteins are intrinsic to all biological processes and interact with each other in tightly regulated and orchestrated signalling complexes and pathways. Characterization of protein binding can help to elucidate protein function within signalling pathways. This information is vital for researchers to gain a more comprehensive knowledge of cellular networks which can then be used to develop new therapeutic strategies for disease. However, studying protein-protein interactions (PPIs) can be challenging as the interactions can be extremely transient downstream of specific environmental cues. There are many powerful techniques currently available to identify and confirm PPIs. Choosing the most appropriate range of techniques merits serious consideration. The aim of this review is to provide a starting point for researchers embarking on a PPI study. We provide an overview and point of reference for some of the many methods available to identify interactions from in silico analysis and large scale screening tools through to the methods used to validate potential PPIs. We discuss the advantages and disadvantages of each method and we also provide a workflow chart to highlight the main experimental questions to consider when planning cell lysis to maximize experimental success.
authors.affiliation: Graduate Entry Medical School and Health Research Institute, University of Limerick, Limerick, Ireland.
authors.forename: Sheri
authors.initials: S
authors.lastname: Hayes
authors.affiliation: Graduate Entry Medical School and Health Research Institute, University of Limerick, Limerick, Ireland.
authors.forename: Beatrice
authors.initials: B
authors.lastname: Malacrida
authors.affiliation: Graduate Entry Medical School and Health Research Institute, University of Limerick, Limerick, Ireland Maeve.Kiely@ul.ie.
authors.forename: Maeve
authors.initials: M
authors.lastname: Kiely
authors.affiliation: Graduate Entry Medical School and Health Research Institute, University of Limerick, Limerick, Ireland.
authors.forename: Patrick A
authors.initials: PA
authors.lastname: Kiely
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D006801:Humans; D011485:Protein Binding; D025941:Protein Interaction Mapping / Q000379:methods*; D011506:Proteins / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D012106:Research / Q000639:trends
chemical_list: D011506:Proteins
keywords: cell biology; protein–protein interactions; proteomics; signalling pathways