LINPS: A database for cancer cell-specific perturbations of biological networks

Screening for potential cancer therapies using existing large datasets of drug perturbations requires expertise and resources not available to all. This is often a barrier for lab scientists to tap into these valuable resources. To address these issues, one can take advantage of prior knowledge especially those coded in standard formats such as causal biological networks (CBN). Large datasets can be converted into appropriate structures, analyzed once and the results made freely available in easy-to-use formats. In this three parts tutorial, we will give a full description of one large scale analysis of using this approach, one case study of building a network of metastasis suppressors from scratch, and a walkthrough example code to perform and adapt these tools for different use cases.

This talk describes the construction of a database for cancer-cell-specific perturbations of biological networks (LINPS). The author pre-computed cancer-cell-specific perturbation amplitudes of several biological networks and made the output available in a database with an interactive web interface.