Related Experiment Video
Updated: Jul 10, 2026

DeepOmicsAE: Representing Signaling Modules in Alzheimer's Disease with Deep Learning Analysis of Proteomics, Metabolomics, and Clinical Data
Published on: December 15, 2023
Python-Based Interactive Notebooks for Teaching AI and Data Science to Undergraduate Students in the Life Sciences
Kriti Shukla1, Elizabeth Brunk2,3,4,5
1Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
None:
This chapter presents a reproducible, cloud-based framework for integrating Python-driven data analysis into a large-enrollment undergraduate biochemistry course. Rapid growth in technologies has transformed biochemistry into a data-intensive discipline, yet most life-science students receive little formal training in computational skills. To address this gap, we developed a set of interactive Jupyter notebooks that embed introductory coding, protein structure visualization, metabolic modeling, and simple multi-omics analysis directly within the core biochemistry curriculum. The workflow is delivered entirely through the CyVerse Discovery Environment, which provides browser-based JupyterLab sessions with preconfigured Python environments, version-controlled notebooks, and standardized datasets. This infrastructure eliminates the need for local installation, supports hundreds of simultaneous users, and ensures consistent execution across diverse student hardware. The notebooks follow a scaffolded learn-apply-reflect design that links biochemical concepts with incremental coding tasks, enabling students with no prior experience to manipulate real datasets, generate visualizations, and interpret quantitative patterns. Assessment using validated pre/post surveys across more than 1000 matched responses demonstrated substantial gains in students' confidence with coding and their ability to interpret omics data. The protocol outlined here offers a scalable, equitable model for incorporating computational literacy into biochemistry education and can be readily adapted for related life-science courses.
Related Concept Videos
Synthetic Biology
Golden rice
Golden rice is a genetically modified...
Non-equilibrium in the Cell
Statistical Software for Data Analysis and Clinical Trials
Biostatistics: Overview
Discrete variables are...
Introduction to Biological Bases of Psychology
The nervous system, the cornerstone of...