Scientists have found a way to find the proverbial needle in the cancer antigen haystack, according to a report published in The Journal of Experimental Medicine.
As cancer cells divide, they accumulate random mistakes (mutations). This process creates new versions of proteins, some of which are recognized as foreign invaders by immune cells called T cells, prompting the cells to attack and eliminate the cancer cells. With our current ability to identify all of the mutations in a patients cancer and to understand which protein sequences can be recognized by T cells, scientists can now predict which mutations will result in new T cell targets (called neoepitopes). Some of these neoepitopes can then be used as vaccines to elicit a protective T cell response that destroys the cancer.
But heres the catch. These prediction tools generate hundreds of possible neoepitopes, of which only a handful can actually elicit T cells capable of attacking the tumor. And so far, there has been no reliable common denominator to help pinpoint this useful handful.
Previous attempts to predict cancer neoepitopes have relied on how strongly the mutated protein is recognized by the immune system. But scientists at the University of Connecticut now show that the strength of this interaction is a poor predictor. A better (albeit still imperfect) measure turns out to be how different the mutation looks to the T cell when compared to its normal counterpart”the more distinct, the better. These results have the potential to completely change current approaches to generating anticancer vaccines.

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