Biclustering-based association rule mining approach for predicting cancer-associated protein interactions

• Published in: IET systems biology 2019-10, Vol.13 (5), p.234-242
• Main Authors: Dey, Lopamudra, Mukhopadhyay, Anirban
• Format: Article
• Language: English
• Subjects: Algorithms; annotation type; biclustering‐based association rule mining approach; biological processes; cancer; cancer disease; cancer research; cancer‐associated protein interactions; cancer‐associated proteins; cancer‐related diseases; cancer‐related protein interaction databases; Cluster Analysis; Computational Biology - methods; data mining; Databases, Protein; genetics; human proteins; Humans; medical computing; Molecular Sequence Annotation; negative data set; Neoplasm Proteins - metabolism; pattern clustering; PPI database; Protein Interaction Mapping; proteins; protein–protein interactions; Research Article
• ISSN: 1751-8849; 1751-8857
• DOI: 10.1049/iet-syb.2019.0045

Protein–protein interactions (PPIs) have been widely used to understand different biological processes and cellular functions associated with several diseases like cancer. Although some cancer-related protein interaction databases are available, lack of experimental data and conflicting PPI data among different available databases have slowed down the cancer research. Therefore, in this study, the authors have focused on various proteins that are directly related to different types of cancer disease. They have prepared a PPI database between cancer-associated proteins with the rest of the human proteins. They have also incorporated the annotation type and direction of each interaction. Subsequently, a biclustering-based association rule mining algorithm is applied to predict new interactions with type and direction. This study shows the prediction power of association rule mining algorithm over the traditional classifier model without choosing a negative data set. The time complexity of the biclustering-based association rule mining is also analysed and compared to traditional association rule mining. The authors are able to discover 38 new PPIs which are not present in the cancer database. The biological relevance of these newly predicted interactions is analysed by published literature. Recognition of such interactions may accelerate a way of developing new drugs to prevent different cancer-related diseases.