Jonathan D. Fischer

This paper introduces QRscore, a non-parametric test for detecting distributional shifts in gene expression, showing it outperforms existing methods in detecting variance and mean shifts.

The paper shows that RNA-controlled shuttling of Xrn1 and its decay factors regulates mRNA synthesis and decay, revealing a novel nuclear-initiated cytoplasmic decay pathway.

The paper analyzes alternative splicing across diverse mouse cell types using two large-scale single-cell datasets, identifying novel isoforms and splicing regulation patterns.

This paper introduces RNA-Sieve, a likelihood-based method to deconvolve bulk RNA-seq data using single-cell references, providing accurate cell type proportion estimates and confidence intervals.

The paper identifies over 100 post-translational modifications of Rpb4/7 that regulate mRNA lifecycle stages by modulating interactions with key regulators.

The paper shows Xrn1, a decay factor, modulates RNA polymerase II processivity in yeast genes, affecting transcription initiation, elongation, and termination.

The paper introduces MultiCluster, a tensor decomposition method for analyzing multi-tissue gene expression data, showing improved accuracy and speed over existing methods.