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Series GSE38591 Query DataSets for GSE38591
Status Public on Dec 31, 2012
Title Identification of global alteration of translational regulation in glioma in vivo
Organism Mus musculus
Experiment type Expression profiling by array
Summary Post-transcriptional regulation of gene expression contributes to the protein output of a cell, however, methods for measuring translational regulation in complex in vivo systems are lacking. Here, we describe a sensitive method for measuring translational regulation in defined cell populations from heterogeneous tissue in vivo. We adapted the translating ribosome affinity purification (TRAP) methodology to measure the relative occupancy of individual mRNA transcripts in translating ribosomes in the Olig2-positive tumor cell population in a genetically engineered mouse model (GEM) of glioma. Global measurement of paired ribosome-bound and total cellular mRNA populations from tumor cells in vivo identified a broad distribution of relative ribosome occupancies amongst mRNA species that was highly reproducible across biological samples. Comparison of the translation state of glioma cells to non-transformed oligodendrocyte progenitor cells in normal brain identified global alteration of translation in tumor, and specifically of genes involved in cell division and synthetic metabolism. Furthermore, investigation of alteration in steady state translational efficiencies upon loss of PTEN, one of the most frequently mutated and deleted tumor suppressors in glioma, identified differential translation of proteins involved in cellular respiration, canonically regulated by PI3K/Akt signaling, and cellular glycosylation profiles, deregulation of which is known to be associated with tumor progression. Application of the translation efficiency profiling method described here to other biological contexts and conditions would extend our knowledge of the scope and impact of this important mode of gene regulation in complex in vivo systems.
 
Overall design Total RNA and ribosome-bound RNA from Olig2+ cells in normal mouse brain and a mouse model of glioma was collected, microarray and compared.
 
Contributor(s) Helmy K, Halliday J, Fomchenko E, Setty M, Hafemeister C, Holland E
Citation(s) 22929615
Submission date Jun 08, 2012
Last update date Jun 14, 2018
Contact name Karim Helmy
E-mail(s) karimhelmy@stanfordalumni.org
Organization name Memorial Sloan-Kettering Cancer Center
Street address 1275 York Avenue
City New York
State/province NY
ZIP/Postal code 10065
Country USA
 
Platforms (1)
GPL6885 Illumina MouseRef-8 v2.0 expression beadchip
Samples (24)
GSM945829 Olig2 Cells, PDGF Glioma Ribosome-bound RNA, Replicate 1
GSM945830 Olig2 Cells, PDGF Glioma Ribosome-bound RNA, Replicate 2
GSM945831 Olig2 Cells, PDGF Glioma Ribosome-bound RNA, Replicate 3
Relations
BioProject PRJNA168200

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE38591_RAW.tar 3.1 Mb (http)(custom) TAR
GSE38591_non-normalized.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table
Raw data are available on Series record

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