4 ms·
I am curious how much of this is a bioinformatics insight. If your dataset is looking under the lamp-post for coding sequences, then you'd be unlikely to pull
by jfarlow 8y ago
I am curious how much of this is a bioinformatics insight. If your dataset is looking under the lamp-post for coding sequences, then you'd be unlikely to pull out non-coding regions for analysis. However, if you're strictly empirical in your search for tumor-specific antigens, then such sequences shouldn't be too much of a surprise. Either way, it's a very curious fact of biology here.
On a separate note, the idea that unused viral sequences start showing up as neo-antigens is also interesting. Those old viruses in our genome likely have curious roles in other parts of our immune system such that a therapy targeting them specifically might have odd repercussions.
Regardless, having more cancer-specific (cancer-enriched?) identifiers is a good thing. And especially if used with synbio 'logic' like that found in bi-Specific CARs or SynNotch, these just add more circles to the Venn-diagram that is used to uniquely identify cancerous cells amongst our 'self'.
- dannykwells 8y agoYeah, I think that's a reasonable point. There's definitely a good point of lamp-post searching here, imo. The biggest challenge is that technologies like mass spec can't get you a truly unbiased few of the tumor epi-nome, and so it's hard to really get a truly measurement of what fraction are from where (this is what they are trying to do here, but I think depth is still an issue). The viruses part is interesting too, but from a different angle: viral specific t-cells are found, in abundance in tumors, and it's believed that they aren't doing anything (i.e., they're bystanders) - https://www.ncbi.nlm.nih.gov/pubmed/29769722 https://www.ncbi.nlm.nih.gov/pubmed/29769722