On Beyond Genome: Opportunities and Challenges Using the Other Omics for Precision Medicine
summary
Combines RNA-seq, ChIP-seq, phosphoproteomics and targeted/untargeted mass spec into a merged interactome of ~40,000 nodes and >1,000,000 edges, using a prize-collecting Steiner forest solver implemented as omics integrator. Assigns node prizes, edge reliabilities and hub penalties (metabolite penalty ~degree squared) to avoid trivial short circuits. Applied to mouse high-fat diet insulin resistance, it predicts bile acid transporter involvement, validates bile acid leakage histologically, annotates unknown lipid masses and finds a hidden node that alters cell viability.
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chapters (8)
- 0:00Overview and motivation
- 3:59Challenges in data analysis
- 7:43Methodology introduction
- 11:01Metabolomics integration
- 15:27Insulin resistance study
- 23:00Untargeted metabolomics
- 25:10Summary and future directions
- 26:59Q&A session
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