Raphaëlle Luisier

Resolving context-specific protein-protein interactomes forbiological discovery and therapeutic target prioritisation

ProtScape learns context-specific protein interactomes across 200 cell types, improving interaction reconstruction and identifying disease-related mechanisms.

Topology-aware reconstruction of cellular state landscapes from microscopy using self-supervised learning

The paper introduces SI-SimCLR, a self-supervised learning framework for reconstructing cellular phenotypic landscapes from microscopy data without segmentation or annotation, revealing substate organization and connections in astrocytes.

Extended pre-training of histopathology foundation models uncovers co-existing breast cancer archetypes characterized by RNA splicing or TGF-β dysregulation

This paper extends pre-training of histopathology foundation models to specialize them for tumor tissue, revealing two coexisting breast cancer archetypes defined by RNA splicing and TGF-β dysregulation.

Generation of morphologically distinct astrocyte subtypes from human iPSCs reveals a link between glial shape, function and reactivity

The paper generates morphologically distinct astrocyte subtypes from human iPSCs and links their shape, function, and reactivity.

m6a methylation orchestrates IMP1 regulation of microtubules during human neuronal differentiation

The paper shows m6A methylation guides IMP1's regulation of microtubule-related mRNAs during human neuronal differentiation.

Image-based deep learning reveals the responses of human motor neurons to stress and ALS

This study uses image-based deep learning to uncover novel morphological changes in VCP-mutant human motor neurons under stress, revealing disease-relevant information from fluorescent markers.

3’UTR cleavage of transcripts localized in axons of sympathetic neurons

The paper shows that 3UTR cleavage occurs in sympathetic neuron axons, mediated by Ago2 and HuD, and regulates local protein synthesis and generates new 3UTR RNA fragments.

Diminished miRNA activity is associated with aberrant cytoplasmic intron retention in ALS pathogenesis

The paper identifies cytoplasmic intron-retaining transcripts (IRTs) associated with miRNA activity changes in ALS, showing VCP mutations increase IR and target gene expression.

Automated and unbiased classification of motor neuron phenotypes with single cell resolution in ALS tissue.

The paper develops an automated image processing pipeline with machine learning to classify motor neuron phenotypes in ALS tissue at single-cell resolution, revealing common morphological aberrations and validating their discriminative power between ALS and healthy tissue.

An aberrant cytoplasmic intron retention programme is a blueprint for ALS-related RBP mislocalization

The paper identifies aberrant cytoplasmic intron-retaining transcripts (IRTs) in ALS and shows their association with RBP mislocalization.

Widespread FUS mislocalization is a molecular hallmark of ALS

The paper investigates FUS mislocalization in ALS, finding it occurs in both VCP-mutation related and sporadic ALS, and links it to aberrant intron retention in SFPQ transcripts.

Post-transcriptional remodelling is temporally deregulated during motor neurogenesis in human ALS models

The paper identifies post-transcriptional changes during motor neurogenesis in ALS models, showing premature intron retention in VCP-mutant cells and similar effects in SOD1 and FUS mutations.