GEO DataSets

Analysis of Ewing family tumor (EFT) and neuroblastoma (NB) samples. Distinguishing EFTs from other small round blue cell tumors (SRBCTs), such as NBs, by histologic methods is often difficult. Results identify EF-associated genes that enable molecular discrimination between EFTs and other SRBCTs.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state sets

Platform:

GPL96

Series:

GSE1825

10 Samples

Download data: CEL

(Submitter supplied) By using high-density DNA microarrays, we analyzed the gene-expression profile of Hodgkin's lymphoma cell lines.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5175

3 Samples

Download data: CEL

(Submitter supplied) Chromatin modifications are increasingly recognized as a key mechanism in cancer. The histone methyl-transferase Enhancer of Zeste, Drosophila, Homolog 2 (EZH2) is the enzymatic subunit of the polycomb PRC2 complex and methylates histone H3K27, thereby, mediating gene silencing. Down-regulation of EZH2 by RNA interference in ET suppressed oncogenic transformation, tumor development and metastasis in a respective mouse model. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by array

Platform:

GPL7258

12 Samples

Download data: GPR

(Submitter supplied) We found the PRC2 component EZH2 to be upregulated by the pathognomonic fusion oncogene EWS-FLI1 in Ewing tumors and mesenchymal stem cells (Richter GH et al., Proc Natl Acad Sci U S A. 2009;106:5324-9). Downregulation of EZH2 by RNA interference in Ewing tumor cell lines suppressed oncogenic transformation in vitro and in vivo. These data suggest that EZH2 might play a central role in Ewing Tumor pathology.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

9 Samples

Download data: CEL, CHP

(Submitter supplied) Comparison of gene expression profiles between neuroblastoma samples and Ewing family tumor samples. RNA from native tumor samples was processed for DNA-microarray analysis using Affymetrix HG-U133A microarrays. Primary image analysis was performed using MAS 5.0 and data were scaled to an target intesity of 500. Keywords: ordered

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1713

Platform:

GPL96

10 Samples

Download data: CEL, TXT

(Submitter supplied) Gene expression analysis of cell lines initially established as neuroblastoma cell lines. Cells were harvested and processed for DNA-microarray analysis using Affymetrix HG-U133A microarrays. Primary image analysis was performed using MAS 5.0 and data were scaled to an target intesity of 500. Keywords: other

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1548

Platform:

GPL96

4 Samples

Download data: CEL

(Submitter supplied) Response of A673-cells to transfection with interleukin 2 (IL-2). Ewing family tumor (EFT) cell line A673 was transfected with an expression vector for IL-2 (cell line SBVGA1) or empty control vector (cell line SBVGA3). Cells were harvested at 3 different time points and processed for DNA-microarray analysis using Affymetrix HG-U95A microarrays. Primary image analysis was performed using MAS 5.0. In addition, primary analysis was performed with MAS 4.0 and data were scaled to an target intesity of 200. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS918

Platform:

GPL91

9 Samples

Download data

(Submitter supplied) Response of HEK293-cells after transfection with EWS-FLI1. HEK293 cells were transfected with the expression vector pIRES2-EGFP containing type I EWS-FLI1 or empty control vector. For transient transfection standard DEAE dextran method was used and RNA was isolated 48h post transfection. For stable transfection cells were transfected using FuGENE 6 (Roche, Mannheim, Germany) and cells were selected with 400 ug/mL G418. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS916

Platform:

GPL96

9 Samples

Download data

Analysis of four cell lines initially established as neuroblastomas. Results indicate that the SK-N-MC cell line expresses all of the Ewing Family Tumor (EFT) signature genes. EFTs are small round blue cell tumors that show features of neuroectodermal differentiation.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 4 cell line, 2 disease state sets

Platform:

GPL96

Series:

GSE1824

4 Samples

Download data: CEL

Analysis of Ewing family tumor (EFT) cell line A673 response to interleukin-2 (IL-2) transfection to assess possible undesirable effects (e.g. tumor stimulation) of in vitro manipulation. Results impact the potential use of IL-2 transfection as an in vivo immunotherapy for EFT patients.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 cell line, 3 isolate sets

Platform:

GPL91

Series:

GSE1823

9 Samples

Download data

Human embryonic kidney cells HEK293 transfected with the Ewing family tumor (EFT)-specific EWS-FLI1 fusion protein to investigate the histogenetic origin of EFTs. The observed EFT-specific gene expression profile supports the concept of a neural crest and endothelial origin of EFT stem cells.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 cell line sets

Platform:

GPL96

Series:

GSE1822

9 Samples

Download data

(Submitter supplied) Ewing Tumors (ET) are highly malignant tumors, localized in bone or soft tissue and are molecularly defined by ews/ets translocations. We identified histone methyl-transferase Enhancer of Zeste, Drosophila, Homolog 2 (EZH2) to be increased in ET. EZH2’s suppressive activity maintains stemness in normal and malignant cells. Here we found EZH2 to be upregulated by the pathognomonic fusion oncogene EWS-FLI1 in ET and mesenchymal stem cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

9 Samples

Download data: CEL, CHP

(Submitter supplied) The cellular origin of Ewing tumor (ET), a tumor of bone or soft tissues characterized by specific fusions between EWS and ETS genes, is highly debated. Through gene expression analysis comparing ETs with a variety of normal tissues, we show that the profiles of different EWS-FLI1-silenced Ewing cell lines converge toward that of mesenchymal stem cells (MSC). Moreover, upon EWS-FLI1 silencing, two different Ewing cell lines can differentiate along the adipogenic lineage when incubated in appropriate differentiation cocktails. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

39 Samples

Download data: CEL

(Submitter supplied) The molecular hallmark of the Ewing family of tumors is the presence of balanced chromosomal translocations leading to the formation of chimerical transcription factors (i.e. EWS/FLI1) that play a pivotal role in the pathogenesis of Ewing tumors by deregulating gene expression. We have recently demonstrated that DAX1 (NR0B1), an orphan nuclear receptor which was not previously implicated in cancer, is induced by the EWS/FLI1 oncoprotein and is highly expressed in Ewing tumors, suggesting that DAX1 is a biologically relevant target of EWS/FLI1-mediated oncogenesis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2895

12 Samples

Download data: TXT

(Submitter supplied) Expression profiles were generated from hESC-derived neural crest stem cells following transduction with GFP control vector or EWS-FLI1 vector. Expression was analyzed in stem cell conditions 5 days after transduction (undifferentiated conditions) and after 6 weeks in differentiation media (differentiation conditions). Changes in gene expression over time were compared between control and EWS-FLI1 expresssing cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5175

12 Samples

Download data: CEL

(Submitter supplied) Affymetrix exon array data were generated from total RNA that was isolated from localized Ewing sarcoma biopsy specimens. Expression of transcript summarized data was compared to data generated from normal stem cells and normal adult tissues.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5175

74 Samples

Download data: CEL

(Submitter supplied) Ewing sarcomas (ES) are highly malignant, osteolytic bone or soft tissue tumors, which are characterized by early metastasis into lung and bone. Genetically, ES are defined by balanced chromosomal EWS/ETS translocations, which give rise to chimeric proteins (EWS-ETS) that generate an oncogenic transcriptional program associated with altered epigenetic marks throughout the genome. By use of an inhibitor (JQ1) blocking BET bromodomain binding proteins (BRDs) we strikingly observed a strong down-regulation of the predominant EWS-ETS protein EWS/FLI1 in a dose dependent manner. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

4 Samples

Download data: CEL

(Submitter supplied) The pathognomonic EWS/ETS fusion transcription factors drive Ewing sarcoma (EWS) by orchestrating an oncogenic transcription program. Therapeutic targeting of EWS/ETS has not been successful; therefore identifying mediators of the EWS/ETS function could offer new therapeutic targets. Here we describe the dependency of chromatin reader BET bromodomain proteins in EWS/ETS driven transcription and investigate the potential of BET inhibitors in treating this lethal cancer. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

22 Samples

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24268 GPL18573

41 Samples

Download data: BW

(Submitter supplied) Various types of repetitive sequences are dysregulated in cancer but their contributions to oncogenesis are yet to be determined. Here we combine nascent transcription profiling with epigenome editing to test the function of GGAA microsatellites in Ewing sarcoma, a pediatric bone cancer where the oncogenic fusion protein EWS-FLI1 induces chromatin features of active enhancers at this class of repeats. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

6 Samples

Download data: BW