Kathleen Cheung

An anciently diverged family of RNA binding proteins maintain correct splicing of a class of ultra-long exons through cryptic splice site repression

This study shows RBMX and RBMXL2 proteins regulate splicing of ultra-long exons by repressing cryptic splice sites, with RBMXL2 rescuing splicing defects in somatic cells.

RBMX enables productive RNA processing of ultra-long exons important for genome stability

The paper shows RBMX prevents non-productive splicing of ultra-long exons, maintaining genome stability by blocking aberrant splice sites in genes like ETAA1.

Dynamic chromatin accessibility landscape changes following interleukin-1 stimulation

The paper identifies and functionally validates dynamically accessible chromatin regions in response to IL-1 stimulation using ATAC-seq and CRISPR/Cas9.

microRNA-seq of cartilage reveals an over-abundance of miR-140-3p which contains functional isomiRs

The paper identifies miR-140-3p as more abundant in human cartilage and shows its isomiRs have distinct functional targets.

Multi-tissue epigenetic analysis of the osteoarthritis susceptibility locus mapping to the plectin gene PLEC

This study investigates the functional effects of the OA-associated SNP rs11780978 on PLEC methylation and expression across multiple tissues, revealing tissue-specific impacts.

Histone ChIP-Seq identifies differential enhancer usage during chondrogenesis as critical for defining cell-type specificity

The paper uses histone ChIP-seq and DNA methylation data to identify enhancer usage changes during chondrocyte differentiation and their regulation by SOX9.

DNA hypomethylation during MSC chondrogenesis occurs predominantly at enhancer regions

The paper identifies DNA hypomethylation during MSC chondrogenesis, particularly at enhancer regions, and links these changes to the chondrocyte phenotype and cartilage disease.

Correlation of Infinium HumanMethylation450K andMethylationEPIC BeadChip arrays in cartilage

This study compares DNA methylation measurements from two Illumina arrays in cartilage and finds high overall correlation but poor correlation for CpG sites with low variance.

Androgen-regulated transcription of ESRP2 drives alternative splicing patterns in prostate cancer

The paper shows androgen-regulated ESRP2 transcription controls alternative splicing in prostate cancer, with implications for metastasis.

Spaniel: analysis and interactive sharing of Spatial Transcriptomics data

Spaniel is an R package for analyzing and sharing spatial transcriptomics data, addressing challenges in existing tools.