Pim J. French

TET CpG sequence context specific DNA demeth-ylation shapes progression of IDH-mutant gliomas

The paper identifies DNA methylation changes during IDH-mutant glioma progression, links them to TET enzyme activity, and develops a methylation-based grading system that outperforms WHO grading.

Tumor-initiating genetics and therapy drive divergent molecular evolution in IDH-mutant gliomas

This study identifies genetic changes in IDH-mutant gliomas that correlate with treatment response and tumor evolution using longitudinal genomic data from 206 patient samples.

The epigenetic evolution of gliomas is determined by their IDH1 mutation status and treatment regimen

This study analyzes the epigenetic evolution of IDH1-mutant and IDH1-wildtype gliomas under treatment, showing IDHmut tumors undergo epigenomic changes resembling IDHwt tumors, with implications for treatment strategies.

Genetic and epigenetic determinants of reactivation of Mecp2 and the inactive X chromosome in neural stem cells.

This study develops a mouse model to monitor Mecp2 reactivation in neural stem cells and identifies genetic and epigenetic factors influencing reactivation of the inactive X chromosome.

Detection of fusion transcripts and their genomic breakpoints from RNA sequencing data

Dr. Disco identifies fusion transcripts and genomic breakpoints using non poly(A)-enriched RNA-seq data, revealing transcribed rearrangements and their expression effects in cancer samples.