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Series GSE79302 Query DataSets for GSE79302
Status Public on Nov 04, 2016
Title Analysis of Sox2-regulated transcriptome in glioma stem cells
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Glioblastoma is the most malignant brain tumor in adults and is associated with poor survival despite multimodal treatments. Glioma stem cells (GSCs) are cells with properties reminiscent from the normal neural stem cells counterparts. They have been postulated to be the culprit of glioma chemo- and radio-resistance ultimately leading to relapse. Understanding the molecular circuits governing the GSC compartment is essential. Sox2, a critical transcription regulator of embryonic and neural stem cell function, is deregulated in GSCs, but the description of the precise molecular pathways regulated by this gene in GSCs remains poorly understood. Results: We performed a genome-wide analysis of Sox2-regulated transcripts in GSCs, using microarray. We identified a total of 135 differentially expressed coding transcripts and 261 non-coding transcripts (B value > 0). Cell adhesion and cell-cell signaling are among the most enriched terms using GO classification. The pathways altered after Sox2 down-modulation includes multiple cellular processes such as aminoacid metabolism and intercellular signaling cascades. We validate the top 5 down regulated coding genes and one of the top 5 up-regulated coding genes. We also defined and classify the set of non-coding transcripts differentially expressed regulated by Sox2 in GSCs, and validated two of them. Conclusions: We present a comprehensive analysis of the transcriptome controlled by Sox2 in GSCs, gaining insights in the understanding of the potential roles of Sox2 in glioblastoma.
Overall design Sox2 expression was inhibitd in GSC-11 cell line (human glioblastoma neurosphere cell line) using a specific siRNA against human Sox2 (si-Sox2) and a non-targeting control siRNA (si-scramble) (Ambion) in 4 independent experiments
Contributor(s) Alonso M, Acanda A
Citation(s) 27669421
Submission date Mar 16, 2016
Last update date Nov 27, 2018
Contact name Marta Maria Alonso Roldán
Organization name University Hospital of Navarra
Department Dpt of Pediatrics
Lab 2.03
Street address CIMA building , Pio XII 55
City Pamplona
State/province Navarra
ZIP/Postal code 31008
Country Spain
Platforms (1)
GPL13607 Agilent-028004 SurePrint G3 Human GE 8x60K Microarray (Feature Number version)
Samples (8)
GSM2091093 Control_rep1
GSM2091094 Control_rep2
GSM2091095 Control_rep3
BioProject PRJNA315430

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE79302_RAW.tar 30.5 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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