Can AlphaGenome predict the effect of an entire haplotype?

Help & Support
1

Hello,

Thanks for creating such a powerful tool and making it readily available for the research community. I am an oncologist as well as a research scientist. I have been testing AlphaGenome for the past few days and was impressed by its ability to accurately replicate results for single SNP changes. However, many cancers are associated with haplotypes where multiple SNPs, each tens of thousand BPs apart, jointly alter the DNA expression level/TF binding/splicing.

Question: is alphagenome able to predict the cooperativity of multiple SNPs at the same time?

Thanks

2

Hi @Steve_S,

So we currently don’t provide an easy means of scoring multiple SNPs, but it should be possible to provide a large variant that encapsulates all SNPs, as described in this post.

Hopefully this helps!