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Series GSE21486 Query DataSets for GSE21486
Status Public on Nov 30, 2013
Title From mouse to humans: detecting preventing vaccination targets associated to breast cancer stem cells
Organism Mus musculus
Experiment type Expression profiling by array
Summary The efficacy of cancer treatments have improved constantly in the last decade. However, therapeutic resistance and the lack of curative treatments in metastatic disease, raises the question if conventional anticancer therapies target the right cells. Indeed, these treatments might miss cancer stem cells (CSCs), which might also represent a more chemoresistant and radioresistant subpopulation within cancer. In this view using vaccines in tertiary prevention of cancer, i.e. residual disease treatment, might be particularly effective if vaccine-elicited immune response is directed against CSC oncoantigens (OAs) — proteins required for the neoplastic process — the chance that the tumour will evade the vaccine should be reduced. An important task to devise effective CSC preventive vaccines is therefore the identification of CSC OAs. In this experiment we used a cell line (TuBo) derived by the mouse breast cancer model BALB-neuT and its CSC subpupolation, enriched by mean of mammosphere formation. Integrating data derived by gene and exon-level transcription profiling of the above experiments with public available normal and tumor datasets we identified two new breast cancer CSC OAs: TMPRSS4 and xCT. Both genes are linked to invasion, migration and metastasis. Furthermore, we observed that alternative splicing events discriminating TuBo cells, grown in adherent medium, with respect of TuBo mammospheres, produced growing in no-adherent medium, are very limited. We detect only one clear splcing event characterizing the beta-isoform of Rabgap1l gene.

This SuperSeries is composed of the SubSeries listed below.
Overall design The adherent TuBo epithelial cells were generated from a mammary carcinoma arising in a BALB/c mouse female transgenic for the activated rat ErbB2 oncogene (BALB-neuT) and were cultured in DMEM supplemented with 20% FCS. Single TuBo cells were plated in ultra low attachment flasks in serum-free DMEM-F12 medium supplemented with bFGF, EGF and insulin. Nonadherent spherical clusters of cells, named mammospheres, were collected by gentle centrifugation after 7 days and dissociated enzymatically and mechanically, using trypsin and pipetting, respectively.
Contributor(s) Lanzardo S, Conti L, Cantarella D, Forni G, Cavallo F, Calogero RA
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Submission date Apr 23, 2010
Last update date Jan 16, 2019
Contact name Raffaele A Calogero
Phone ++39 0116706454
Organization name University of Torino
Department Molecular Biotechnology Center
Lab Bioinformatics and Genomics Unit
Street address Via Nizza 52
City Torino
State/province To
ZIP/Postal code 10126
Country Italy
Platforms (2)
GPL6096 [MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [transcript (gene) version]
GPL6887 Illumina MouseWG-6 v2.0 expression beadchip
Samples (31)
GSM536099 tubo exp 3 epithelial bulk
GSM536100 tubo exp 3 mammospheres p3
GSM536101 tubo exp 3 mammospheres p2
This SuperSeries is composed of the following SubSeries:
GSE21451 From mouse to humans: detecting preventing vaccination targets associated to breast cancer stem cells. Gene-level analysis
GSE21475 From mouse to humans: detecting preventing vaccination targets associated to breast cancer stem cells. Exon-level analysis
BioProject PRJNA126023

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
GSE21486_RAW.tar 483.2 Mb (http)(custom) TAR (of CEL, TXT)
Raw data provided as supplementary file
Processed data included within Sample table

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