Benjamin-Lee
New paper on DA for scRNA-seq
Single-cell RNA-seq denoising using a deep count autoencoder
Denoising enables discovery of subtle cellular phenotypes
After having evaluated DCA against competing methods, we tested if DCA denoising could enhance biological discovery which is impossible or more challenging to obtain without denoising. Stoeckius et al. highlight the potential for integrated and multimodal analyses to enhance the discovery of cellular phenotypes, particularly when differentiating between cell populations with subtle transcriptomic differences. (...) After denoising, the two sub-populations of NK cells become visually more clearly evident based on DCA denoised NCAM1 and FCGR3A RNA expression levels .
This is nice! I think it would be good to add a few sentences about this in ./content/10.blackbox.md I.e., saying that DL also offers new opportunities for interpreting results.
I think "Tip 2: Use traditional methods to establish performance baselines" seems to be the best place for that imho. Do you suggest a different tip?
I was just basing the project assignment for where this paper fitted best based on your comment above and @tbrittoborges WIP.
Oh I see! Never really used this "project assignment" features and thought this was a "manually written" message :)