Maybe, just maybe, we will be able to find some of the epistatic genetic effects through clever search algos. https://arxiv.org/abs/1610.05108 pic.twitter.com/KlPgz0fIOh
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I think lasso's behavior in sparsifying is probably the exact opposite of what one would want. The other end of the spectrum, ridge, would be more useful b/c it ranks SNPs while shrinking, and small bets still let you take the top Nk SNPs (whatever you can feasibly fit the CNN).
Well, one will have to try a variety of approaches. Hsu's team currently prune the snp list by ranking them by p value from singular regression first, then taking the top 50k or whatever snps and feeding these to the lasso.