Michaela Müller-McNicoll

The extended Split-ORF pipeline: Prediction and evaluation of Split-ORFs using Ribo-seq data

The paper improves the Split-ORF pipeline to analyze Ribo-seq data, identifies over 14,000 candidate Split-ORF transcripts, and finds many show significant Ribo-seq coverage across cell types and diseases.

iCLIP3: A streamlined, non-radioactive protocol for mapping protein-RNA interactions in cellular transcripts at single-nucleotide resolution

The paper introduces iCLIP3, a streamlined protocol for mapping RBP-RNA interactions at single-nucleotide resolution, with improvements in visualization, RNA isolation, and multiplexing.

Splicing regulation by RS2Z36 controls ovary patterning and fruit growth in tomato

This study identifies RS2Z36 as a splicing regulator that controls ovary patterning and fruit growth in tomato by affecting cell expansion and alternative splicing.

Smart 3D super-resolution microscopy reveals the architecture of the RNA scaffold in a nuclear body

The paper uses smart 3D super-resolution microscopy to study the RNA scaffold structure in paraspeckles, revealing new insights into their 3D organization and growth.

FUS post-transcriptional splicing is autoregulated via RNA condensation with therapeutic potential for ALS-FUS

This study shows that FUS RNA condensation regulates its splicing and that disrupting this process can reduce FUS levels, offering a potential therapeutic strategy for ALS-FUS.

Rapid depletion and super-resolution microscopy reveal an unexpected role of the nuclear-speckle protein SRSF5 in paraspeckle assembly and dynamics during cellular stress

This study shows SRSF5 is critical for paraspeckle assembly and dynamics, with stress-induced changes and compensatory effects on TDP-43 and NEAT1.

TRIM28 regulates pre-mRNA splicing via phosphorylation and SUMOylation networks

This study identifies TRIM28's role in pre-mRNA splicing through phosphorylation and SUMOylation interactions with USP39, showing its impact on alternative splicing patterns.

ERH regulates type II interferon immune signaling through post-transcriptional regulation of JAK2 mRNA

The paper identifies ERH and associated factors as post-transcriptional regulators of JAK2 mRNA maturation, essential for IFNγ signaling and innate immunity.

Long non-coding RNAs direct the SWI/SNF complex to cell-specific enhancers

This study identifies long non-coding RNAs (lncRNAs) as guides for the SWI/SNF complex to cell-specific enhancers, revealing a mechanism for chromatin accessibility and gene expression control.

A plant-specific clade of serine/arginine-rich proteins regulates RNA splicing homeostasis and thermotolerance in tomato

This study identifies RS2Z35 and RS2Z36 as plant-specific splicing factors that regulate HSFA2 intron splicing and thermotolerance in tomato under heat stress.

Arid5a uses disordered extensions of its core ARID domain for distinct DNA- and RNA-recognition and gene regulation

This study defines Arid5a's DNA and RNA-binding preferences using biochemical and high-throughput methods, showing that disordered regions modulate its nucleic acid interactions and gene regulation.