Our research combines the emerging fields of 3D chromatin conformation, epitranscriptomics and non-coding RNAs to advance our understanding on a fundamental question: how is gene expression regulated in pluripotent cells and what are the epigenetic and transcriptional networks that maintain tumorigenesis.
The introduction of chromosome conformation capture (3C)-based technologies coupled with sequencing, such as Hi-C and its derivatives, has advanced the field of 3D-genome research by expanding our ability to understand the chromatin architecture at a genome-wide level. Identifying which factors mediate contacts between regulatory regions, such as enhancers and their target promoters, is crucial in order to better understand the molecular principles governing cell-type-specific gene expression patterns.Several studies showed that transcription factors play an essential role in the formation and maintenance of promoter-enhancer contacts.
We aim to study, in a genome-wide scale, how non-coding RNAs and their epitranscriptomic modifications can shape the 3D genome and dictate differential gene expression patterns.
To what degree are ncRNAs involved in the organization of the 3D genome?
How can epitranscriptomic marks influence the 3D chromatin architecture?
Can we target ncRNAs and epitranscript marks to modulate 3D hubs in cancer stem cells ?