Karine Choquet

NanoCutSight is a nanopore sequencing pipeline to quantify indels and identify modification types in genome editing, benchmarked on guide RNAs in cell and organoid models.

This study uses RNA nanopore sequencing to show that PABPN1 has distinct and independent functions in RNA processing, including alternative polyadenylation, splicing, and nuclear trafficking.

This study uses direct RNA nanopore sequencing to analyze allele-specific pre-mRNA maturation in human lymphoblastoid cell lines, revealing splicing order differences and SNP-splicing associations.

The paper uses chimeric eCLIP to map snoRNA-target RNA interactions, identifying novel interactions and regulatory roles in RNA biogenesis.

The paper quantifies RNA flow across subcellular compartments using TimeLapse-seq and identifies factors influencing mRNA life cycles.

The paper identifies genes involved in mitochondrial and nuclear gene regulation for OXPHOS complex synthesis using genome-wide screens and characterizes their roles in mitochondrial RNA abundance and mitoribosome assembly.

This study shows that SUPT5H mutations disrupt RNA polymerase II pausing, delaying erythroid differentiation and cell cycle progression in human cells.

The paper shows that pre-mRNA splicing order in human cells is largely predetermined and conserved across cell types and differentiation stages, ensuring splicing fidelity.

The paper develops nano-COP to study co-transcriptional splicing in human and Drosophila cells, revealing that splicing order is not strictly transcriptional and is influenced by cis-regulatory elements.

The paper shows that reduced PRMT5 activity during oligodendrocyte differentiation leads to PDGFRα degradation, promoting myelination by altering Cbl binding.