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DNA Strategic Epigenetic Biomarkers in Melanoma

  • Full or part time

    Prof C N A Palmer
  • Application Deadline
    Applications accepted all year round
  • Self-Funded PhD Students Only
    Self-Funded PhD Students Only

Project Description


Hypothesis:
That tumour-specific DNA methylation present in free circulating DNA from melanoma patients will enable early detection of disease relapse or metastasis facilitating life-preserving benefit from additional therapies such as immune checkpoint inhibitors.

Background:
Immune checkpoint inhibitors (ICi) have changed the therapeutic landscape for many malignancies including melanoma. Stratifying patients for adjuvant or early treatment with these agents is crucial to avoid significant toxicities and unnecessary NHS health costs. Detecting high-risk patients likely to benefit is therefore a clinical priority whilst validating cancer-specific methylation will increase our understanding of the mechanisms driving metastasis in melanoma. Previous work by this group has found gene-specific DNA methylation to be associated with melanoma metastasis1. Development of a robust assay for NHS delivery is achievable, but requires further discovery and optimisation.

Proposal:
To use a multiplexed MALDI-TOF mass spectrometry system for detection of methylated DNA sequences in a 384-well format allowing simultaneous testing for cancer-associated methylation at multiple CpG islands in multiple genes in multiple samples. To test this system on serial blood samples already collected from 287 melanoma patients in NHS Tayside and subsequently to validate the assay in a large independent cohort from the AVAST-M clinical trial (collaboration Professor Mark Middleton, Oxford). To initially test 3 genes (TFPI2, P4HA3, AGTR1) shown in pilot studies to be strong candidates as epigenetic biomarkers for metastatic melanoma. To add up to 3 further epigenetic candidates from discovery work developed as a core part of this project. Overall aim is to develop a methylation biomarker panel as a strategic assay for use in an NHS diagnostic setting.


To apply please send a cover letter, curriculum vitae and two references to:

Funding Notes

Please note this is a self-funded PhD project

References

1. Lo Nigro CL Wang H, McHugh A, et al. Methylated Tissue Factor Pathway Inhibitor 2 (TFPI2) DNA in serum is a novel biomarker of metastatic melanoma. J Invest Dermatol. 2013 Feb 14; 133(5): 1278-85

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