Hilary L. Ashe

The paper uses explainable AI on a genomic foundation model to identify RBP motifs influencing translation and mRNA decay in Drosophila.

The paper identifies and validates binding epitopes in Twisted gastrulation (Tsg) that mediate interaction with Sog/Chordin, revealing an avidity-driven mechanism for BMP gradient formation.

This study shows that cytonemes are essential for BMP signaling and germline stem cell maintenance and dedifferentiation in Drosophila ovaries.

The paper develops AquIRE to quantify RNA damage and identifies multiple mechanisms of clinically induced RNA modifications, including glycoRNA dynamics across life kingdoms.

The paper uses the SunTag system to study mRNA translation regulation in Drosophila, showing leaky repression of maternal hb mRNA and demonstrating its use as a reporter for ribosome pausing and ER-localized translation.

The paper shows spatially regulated mRNA decay sharpens the even-skipped expression pattern in Drosophila embryos by improving stripe definition and affecting segmentation.

This paper introduces a MiMIC-based method to rapidly insert MS2/PP7 cassettes into Drosophila genes for live transcription imaging, expanding the tissues and genes that can be studied.

The paper investigates how transcription burst amplitude modulation mediates dosage compensation in Drosophila embryos by analyzing gene expression dynamics.

The paper estimates mRNA half-lives in Drosophila embryos using RNA-seq time series and Gaussian process regression, showing correlations between mRNA stability and P-body association.

The paper models the structure of Sog using AlphaFold and creates a sog knockout fly stock to study its function in Drosophila.

The paper introduces a scalable method to infer transcriptional kinetic parameters from MS2-McP time series data, enabling efficient analysis of promoter activity in Drosophila embryos.

The paper uses the SunTag system to study zygotic hb mRNA translation dynamics in Drosophila embryos, showing translational repression and spatial restriction over time.

The paper shows that BMP signaling modulates transcriptional burst frequency by altering promoter activation rate in Drosophila embryos, leading to graded mRNA output across expression domains.

The paper identifies GSC transcriptomes and shows that cytocensors modulate BMP signaling to facilitate differentiation.