This repository provides various notebooks for the course Interpretation of proteomic experiments in the context of biomolecular networks at the May Institute on Computation and Statistics for Mass Spectrometry and Proteomics.
Interpreting proteomics data using networks representing cellular mechanisms is a powerful approach to gaining actionable insights. In this repository, we first introduce software for annotating data sets using identifiers, a crucial step to prepare data for analysis. We then learn about the INDRA system which automatically assembles mechanisms into networks from both pathway databases and biomedical literature. We provide examples of code that allow scientists to gain insights from data and generate hypotheses based on large-scale networks.
This repository aims to foster confidence and stimulate creativity among biological scientists, encouraging them to fully leverage INDRA's database for their research endeavors.
The development of tools presented in this course is supported by the DARPA grant HR00112220036 and CZI grant 2023-329850.