Ekin Deniz Aksu
@ekindea.bsky.social
Scientist and medical doctor. Biology AI/ML methods, gene regulation, DNA sequence models, single cells. Doing a PhD in computational biology at @molgen.mpg.de.
Congratulations!! 🎉
September 4, 2025 at 4:56 PM
Congratulations!! 🎉
Update: Trans perturbations are very tricky. The model has some capability of this, but mostly the output is not very sensitive to single perturbations. In hindsight this isn't surprising to me.
August 28, 2025 at 7:51 PM
Update: Trans perturbations are very tricky. The model has some capability of this, but mostly the output is not very sensitive to single perturbations. In hindsight this isn't surprising to me.
Amazing list, thank you! I'd like to be included as well. I work on deep learning models of human gene regulation.
August 28, 2025 at 6:49 PM
Amazing list, thank you! I'd like to be included as well. I work on deep learning models of human gene regulation.
I think it makes sense, in that genomic DNA that is not a promoter has, through evolution, committed to being not a promoter. So its distribution is shifted away from promoters. Random DNA shouldn't have such a shift.
August 28, 2025 at 12:32 PM
I think it makes sense, in that genomic DNA that is not a promoter has, through evolution, committed to being not a promoter. So its distribution is shifted away from promoters. Random DNA shouldn't have such a shift.