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Xpresso, Basenji, Enformer,... Where do sequence-based models of transcription stand? In our new preprint, Alex Karollus tested SOTA models against 2 RNA-seq studies and 5 deep perturbation assays testing promoters, enhancers, eQTL 1/n biorxiv.org/content/10.110…

Poster PB2506 "Aberrant splicing prediction across human tissues", Thu 3pm - 4:45pm #ASHG22. Preprint: tinyurl.com/absplice

Looking forward to chat with you at my poster #ASHG22

Proud to announce that our paper on deep models of gene expression is now out Genome Biology rdcu.be/c8xSb. In addition to extensive benchmarks in the preprint (see RT)... x.com/gagneurlab/sta… (1/6)

🎉 OUT TODAY Nature Genetics 📰 Aberrant splicing prediction across human tissues 👩🏻‍🤝‍👨🏼 Nils Wagner, Julien Gagneur, and colleagues 👇🏿 go.nature.com/3ATKsWn

Researchers developed a new algorithm that is six times more reliable than previous models at predicting the effects of #geneticmutations on #RNA formation that may cause rare #hereditarydiseases or #cancer: go.tum.de/674287 gagneurlab 📷D.Gankin

Press release about our aberrant splicing prediction tool AbSplice.

Cracking the regulatory code: We have genomes for 1000s of species, but ENCODE only for 2 – what do we do? Natural language models have shown that syntax and semantics can be learned from text alone. Can we do the same for genomes?⬇️ biorxiv.org/content/10.110…

In which tissues a variant may disrupt splicing? AbSplice predicts this, also allowing leveraging RNA-seq of your patients from clinically accessible tissues, eg blood or fibroblast. Come to my poster PB1021 at #ASHG23 today 3pm to learn more & chat about application on your data

Looking forward to David Kelley's talk on Wednesday at the Kipoi seminar presenting Borzoi biorxiv.org/content/10.110…

Is binarization of scATAC-seq data really necessary? The conclusion from our analysis is that a quantitative treatment is in fact beneficial. Now out in Nature Methods! gagneurlab Fabian Theis nature.com/articles/s4159… Many additions since the preprint 👇(1/n)