RNA-seq analysis of primary patient samples to characterize the CNS leukemia

We present a detailed genetic, transcriptional and physiological study of leukemic cells isolated from the CNS and bone marrows (BM) of both affected children and xenograft model of B-ALL which recapitulate the key features of CNS involvement. We reveal that leukemic cells in CNS possess distinct hypoxic signature such as proliferation suppression, decrease of mitochondrial oxidative phosphorylation and increase of glycolysis compared with leukemic cells in BM. We compared the gene expression profiles of leukemic cells isolated from CSF and BM of primary 3 patients (ALL#6-8) with RNA-seq.