Additional reading

This page contains recommended reading materials in addition to the pre-course content.

! - important

Machine Learning approaches in Integration

• ! Feature selection Links to an external site.
• ! Dimensionality reduction Links to an external site.
• ! Supervised Omics integration Links to an external site.
• ! Unsupervised Omics integration Links to an external site.
• Multi-omics approaches to disease Links to an external site.

Biological Network Analysis and Network Topology

• ! Network biology: understanding the cell’s functional organization Links to an external site.
• ! Network medicine: a network-based approach to human disease Links to an external site.
• Network biology concepts in complex disease comorbidities Links to an external site.
• Gene co-expression analysis and conserved modules Links to an external site.

Genome-scale metabolic modeling

• ! Overview of genome-scale metabolic models Links to an external site.
• What is flux balance analysis? Links to an external site.
• A Systematic Evaluation of Methods for Tailoring Genome-Scale Metabolic Models Links to an external site.
• Human Metabolic Models: Human1 Links to an external site. and Recon3D Links to an external site.
• ! Reporter metabolite analysis Links to an external site.
• Gene set enrichment analysis (GSEA) Links to an external site. and Directional gene set analysis (GSA) Links to an external site.
• Modeling software: Python: COBRApy Links to an external site., MATLAB: RAVEN Links to an external site. and COBRA Links to an external site.