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Transcription profiling of human neurospheres and adherent cells derived from a human glioblastoma multiforme primary tumour

ABSTRACT: Comparison of gene expression patterns between neurospheres and adherent cells derived from a glioblastoma multiforme primary tumour

ORGANISM(S): Homo sapiens

SUBMITTER: Blanca Suarez-Merino

PROVIDER: E-MEXP-551 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Neurospheres enriched in cancer stem-like cells are highly effective in eliciting a dendritic cell-mediated immune response against malignant gliomas.

Pellegatta Serena S Poliani Pietro Luigi PL Corno Daniela D Menghi Francesca F Ghielmetti Francesco F Suarez-Merino Blanca B Caldera Valentina V Nava Sara S Ravanini Maria M Facchetti Fabio F Bruzzone Maria Grazia MG Finocchiaro Gaetano G

Cancer research 20061101 21

Cancer stem-like cells (CSC) could be a novel target for cancer therapy, including dendritic cell (DC) immunotherapy. To address this, we developed experiments aimed at DC targeting of neurospheres (NS) from GL261 glioma cells because neurospheres can be enriched in CSC. We obtained murine neurospheres by growing GL261 cells in epidermal growth factor/basic fibroblast growth factor without serum. GL261-NS recapitulated important features of glioblastoma CSC and expressed higher levels of radial ...[more]

PMID: 17079441

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Transcription profiling of mouse glioma cell line grown in two types of media to investigate cell de-differentiation

Project description:Comparison of gene expression profiles of the GL261 cell line (a murine glioma model) grown in duplicate in two different types of media. AC samples where grown in DMEM supplemented by 20% FBS, 5 U/ml pen/strep and 4 mM L-glutamine. NS samples were grown in DMEM/F12 (50/50) supplemented with 2 U/ml pen/strep, 1 ug/ml fungizone, 1x B27, 20 ng/ml bFGF, 20 ng/ml EGF, 20 ng/ml LIF and 5 ug/ml heparin. We have reason to believe the NS media enhances cell de-differentiation.

2006-12-31 | E-MEXP-718 | biostudies-arrayexpress

MicroRNA expression profiling of Ewing sarcoma spheres vs. adherent cells

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2012-06-19 | E-GEOD-31145 | biostudies-arrayexpress

Transcription profiling of human neurospheres and adherent cells derived from a human glioblastoma multiforme primary tumour

Project description:Comparison of gene expression patterns between neurospheres and adherent cells derived from a glioblastoma multiforme primary tumour

| S-ECPF-MEXP-551 | biostudies-other

Next Generation Sequencing and Quantitative Analysis of Wild Type and p110gamma-/- macrophages

Project description:Purpose: The goals of this study were to identify quantitative gene expression differences between macrophages derived from wild type and PI3Kgamma null macrophages Methods: mRNA profiles of MCSF, IL4 and IFNg/LPS stimulated macrophage wild-type (WT) and PI3Kinase gamma knockout (p110g-/-) mice were generated by single read deep sequencing, in triplicate, using Illumina HiSeq2000. The sequence reads that passed quality filters were aligned to mouse transcriptome using the bowtie2 aligner. Gene-level summaries were normalized and analyzed for differential expression using DESeq. qRTâPCR validation was performed using SYBR Green assays. Conclusions: Our study represents the first detailed analysis of the role of p110g in the control of the macrophage immune response, with biological replicates, generated by RNA-seq technology. mRNA profiles of wild type (WT) and p110g-/- macrophages were generated by deep sequencing, in triplicate, using Illumina HiSeq2000.

2016-07-18 | E-GEOD-58318 | biostudies-arrayexpress

Species-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction

Project description:Metabolic reprogramming is a hallmark of the immune cells in response to inflammatory stimuli. This metabolic process involves a switch from oxidative phosphorylation (OXPHOS)to glycolysis, or alterations in other metabolic pathways. However, most of the experimental findings have been acquired in murine immune cells and little is known about the metabolic reprogramming of human microglia. In this study, we investigated the transcriptomic and metabolic profiles of mouse and iPSC-derived human microglia challenged with the TLR4 agonist LPS. We found that both species displayed a metabolic shift and an overall increased glycolytic gene signature in response to LPS treatment. The metabolic reprogramming was characterized by the upregulation of hexokinases in mouse microglia and phosphofructokinases in human microglia. This study provides the first direct comparison of energy metabolism between mouse and human microglia, highlighting the species-specific pathways involved in immunometabolism and the importance of considering these differences in translational research.

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Cryopreservation of neurospheres derived from human glioblastoma multiforme.

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A TARBP2-dependent miRNA expression profile determines cancer stem cell properties and provides new candidate therapeutic reagents in Ewing's sarcoma

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2012-06-19 | E-GEOD-31146 | biostudies-arrayexpress

Deregulation of the Ras-Erk Signaling Axis Modulates the Enhancer Landscape [RNA-seq]

Project description:Unrestrained receptor tyrosine kinase (RTK) signaling and epigenetic deregulation are root causes of tumorigenesis. We establish linkage between these processes by demonstrating that aberrant RTK signaling unleashed by oncogenic HRasG12V or loss of negative feedback through Sprouty gene deletion remodels histone modifications associated with active typical and super-enhancers. However, while both lesions disrupt the Ras-Erk axis, the expression programs, enhancer signatures, and transcription factor networks modulated upon HRasG12V-transformation or Sprouty deletion are largely distinct. Oncogenic HRasG12V elevates histone 3 lysine 27 acetylation (H3K27ac) levels at enhancers near the transcription factor Gata4 and the kinase Prkcb, as well as their expression levels. We show that Gata4 is necessary for the aberrant gene expression and H3K27ac marking at enhancers, and Prkcb is required for the oncogenic effects of HRasG12V-driven cells. Taken together, our findings demonstrate that dynamic reprogramming of the cellular enhancer landscape is a major effect of oncogenic RTK signaling. We assessed gene expression changes upon loss of feedback regulation through Sprouty (Spry) deletion, and upon unrestrained signaling driven by mutant oncogenes. RNA-seq was performed in biological triplicate; replicate number is included in the sample name. Spry124fl/fl (VEC) and Spry124-/- (CRE) MEFs were profiled in three conditions: unsynchronized (U), serum starved (S), and serum starved and FGF treated (F). Spry124fl/fl (VEC) MEFs transduced with empty vector (EV) control or the indicated oncogenes (KRasG12V, HRasG12V, and BRafV600E) as well as Spry124-/- (CRE) MEFs transduced with EV control were profiled in the unsynchronized state.

2015-08-22 | E-GEOD-63497 | biostudies-arrayexpress

Transcription profiling of mouse ES cells bearing a targeted, doxycycline inducible Mesp1 transgene were differentiated in the absence or presence of DKK1

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2008-10-18 | E-GEOD-5976 | biostudies-arrayexpress

Transcription profiling of mouse embryonic stem cell differentiation following treatment with DKK1

Project description:Assessed effect of DKK1 treatment on gene expression during the first four days of ES cell differentiation in serum containing medium.

2006-12-31 | E-MEXP-759 | biostudies-arrayexpress

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