Computational identification of specific genes for glioblastoma stem-like cells identity

Scientific Reports
Giulia FisconPaola Paci

Abstract

Glioblastoma, the most malignant brain cancer, contains self-renewing, stem-like cells that sustain tumor growth and therapeutic resistance. Identifying genes promoting stem-like cell differentiation might unveil targets for novel treatments. To detect them, here we apply SWIM - a software able to unveil genes (named switch genes) involved in drastic changes of cell phenotype - to public datasets of gene expression profiles from human glioblastoma cells. By analyzing matched pairs of stem-like and differentiated glioblastoma cells, SWIM identified 336 switch genes, potentially involved in the transition from stem-like to differentiated state. A subset of them was significantly related to focal adhesion and extracellular matrix and strongly down-regulated in stem-like cells, suggesting that they may promote differentiation and restrain tumor growth. Their expression in differentiated cells strongly correlated with the down-regulation of transcription factors like OLIG2, POU3F2, SALL2, SOX2, capable of reprogramming differentiated glioblastoma cells into stem-like cells. These findings were corroborated by the analysis of expression profiles from glioblastoma stem-like cell lines, the corresponding primary tumors, and conventiona...Continue Reading

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Citations

Jul 8, 2020·PloS One·Marco WallenbornHeidrun Holland
Sep 17, 2020·International Journal of Molecular Sciences·Anna Maria GrimaldiMariarosaria Incoronato
Apr 1, 2021·Clinical Epigenetics·Federica SarnoUNKNOWN International Network Medicine Consortium
May 1, 2021·International Journal of Molecular Sciences·Virginie BotteroJudith A Potashkin
Jul 21, 2021·Scientific Reports·Valeria PeccePaola Paci
Aug 7, 2021·Biomedicine & Pharmacotherapy = Biomédecine & Pharmacothérapie·Pasquale SibilioAntonella Verrienti

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Datasets Mentioned

BETA
GSE54792
GSE23806

Software Mentioned

Pscan
GSEA
FIDEA
SWIM ( SWItchMiner
SWIM
TargetScan
MATLAB

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