About the Project
The current project involves application of the approach to construct optimal biomarkers which describe development of cancer using in vitro and clinical time-resolved data. Construction of a "good" biomarker is an important unsolved problem [4,5]. Considering the development of the disease as a manifestation of a complex dynamical process, a single index (the biomarker) that gives accurate description of the dynamics will be constructed out of panel of monitored parameters e.g., metabolomics, proteomics and genomics data. The biomarker can be used for fine-grained non-invasive monitoring of normal biological processes, pathogenic processes, or a pharmacologic response to a therapeutic intervention. The proposed approach treats explicitly the dynamical character of the process unlike established techniques such as principal component analysis. The project involves collaboration with Dr RL Hayward and Prof DA Cameron, University of Edinburgh and NHS Lothian. Successful completion will provide the student with high-profile publications and skills which will be in great demand in the future.
Details of the formal application process can be found at the bottom of the page: http://www.findaphd.com/custadverts/leeds/ycr2011.asp
Proc. Natl. Acad. Sci. USA. 105, 13841 (2008).
2. Yew ZT, Krivov S, Paci E, Free-energy landscapes of proteins in the presence and absence of force. J. Phys. Chem. B 2008, 112:16902-16907; Allen LR, Krivov S, Paci E Analysis of the free-energy surface of proteins from reversible folding simulations PLoS Comp. Biol. 2009, 5:e1000428
3. Krivov, S. V. Is protein folding sub-diffusive? PLoS Comput Biol 6, e1000921 (2010).
4. Sawyers, C. L. The cancer biomarker problem. Nature 452, 548 (2008).
5. Poste, G. Bring on the biomarkers. Nature 469, 156 (2011).
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