PPLook: an automated data mining tool for protein-protein interaction

Background: Extracting and visualizing of protein-protein interaction (PPI) from text literatures are a meaningful topic in protein science. It assists the identification of interactions among proteins. There is a lack of tools to extract PPI, visualize and classify the results. Results: We developed a PPI search system, termed PPLook, which automatically extracts and visualizes proteinprotein interaction (PPI) from text. Given a query protein name, PPLook can search a dataset for other proteins interacting with it by using a keywords dictionary pattern-matching algorithm, and display the topological parameters, such as the number of nodes, edges, and connected components. The visualization component of PPLook enables us to view the interaction relationship among the proteins in a three-dimensional space based on the OpenGL graphics interface technology. PPLook can also provide the functions of selecting protein semantic class, counting the number of semantic class proteins which inte...

• Type: Journal
• Year: 2010
• Where: BMCBI
• Authors: Shao-Wu Zhang, Yao-Jun Li, Li Xia, Quan Pan
• Keywords: BMCBI 2010, Interaction Relationship, Protein, Query Protein