Author

Alexander Stark

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Review Open access Aug 2026

Predictive design of tissue-specific mammalian enhancers that function in the mouse embryo

Enhancers control tissue-specific gene expression across animals1. Although deep learning2,3 has enabled enhancer prediction and design in mammalian cell lines and non-mammalian model organisms4, 5, 6, 7, 8, 9–10 (reviewed in a previous publication11), it remains unclear whether such approaches can operate within the r...

Shen-Zhi Chen, Vincent Loubière, Ethan W. Hollingsworth et al. · Nature Genetics · 1 citation

Open access Aug 2026

BARe-seq enables high-throughput dissection of cis-regulatory control of transcriptional bursting

Transcriptional bursts determine RNA output through two kinetic parameters: burst size and burst frequency. How cis-regulatory DNA encodes these kinetic parameters remains unclear, in part because existing approaches do not combine scalable sequence perturbation with allele-resolved burst inference. Here, we developed...

Franziska K. Lorbeer, Reyna Edith Rosales Alvarez, Katharina Bergauer et al. · bioRxiv · 0 citations