We aim to define the epigenetic landscape of iALLand
identify the epigenetic changes that differentiate iALL
cells from normal B cells, as well as MLL-r patients from
MLL-wt patients. Using the same set of samples, we plan
to explore the gene expression changes associated with
this epigenetic dysregulation. To define the
tumour-specific transcriptome, we will combine single-cell
(sc)RNA-seq (BD Rhapsody single-cell analysis
system)and small-RNA-seq to study the expression of
protein-coding mRNAs and miRNAs, respectively. This
strategy is likely to identify better suited targets for the
treatment MLL-r versus MML-wt iALL, and to shed more
light on the gene expression changes that healthy B cells
undergo when transforming into iALL cells. Moreover, the
BD®Rhapsody single-cell analysis systemwill allow for
BCR sequencing, which will be instrumental to detect
possible intra-tumoral clonal alterations of the iALL(i.e.,
clones harbouring stem cell features and possible
derivatives from these). This will provide the possibility to
identify biologically relevant differences in epigenetic
signatures between multiple tumour clones in each iALL
patient sample.