Daniel De Carvalho (University Health Network / University of Toronto, Canada)
“Translational Aspects of DNA Methylation in Cancer”
- [DNA Methylation patterns are tissue specific and conserved across individuals]
- Deconvoluting the tumor microenvironment from DNA methylation data CYBERSORT to profile TME TILS
- DNA methylation patterns are reprogrammed in cancer patients but retain tissue-specificitcirculating cell-free DNA (cfDNA)
- [Cancer Cell 2014 Hoadly. ]
- Detection f ctDNA is a function of ctDNA abundance, sequencing depth and number of features investigated. (Shen et al submitted)
- Our solution -> capture-based approach
- Antibody IP + filler DNA
- cfMeDIP-seq in cell line DNA
- Thousands of DMRs
- Pancreatic cancer samples (n=400 in validation cohort)
- CfDNA methylation profile matches tumor profile
- Hoadley et al Cancer Cell 2014. Reprogramming of Methylation in cancer
- Classifier trained in the TCGA data
- CfMeDIP-seq can discriminate different cancer sub-types
- Epigenetic s
- Genome-wide DNA methylation profiling highly informative of cancer type and Gussie of origin of cfDNA
- High sensitive and specificity
- Cost-effect
- Machine learning (classifier)
- Robust and accurate
- Performance is continually improved