In this tutorial, we explore how to leverage the PyBEL ecosystem to construct and analyze rich biological knowledge graphs directly within Google Colab. We begin by installing all necessary packages, including PyBEL, NetworkX, Matplotlib, Seaborn, and Pandas. We then demonstrate how to define proteins, processes, and modifications using the PyBEL DSL. From there, we guide you through the creation of an Alzheimer’s disease-related pathway, showcasing how to encode causal relationships, protein–protein interactions, and phosphorylation events. Alongside graph construction, we introduce advanced network analyses, including centrality measures, node classification, and subgraph extraction, as well as techniques for extracting citation and evidence…
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