Similar studies for GEO DataSets (Select 200182513) - GEO DataSets

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Items: 20

Select item 2001825131.

EWS-FLI1 and HOXD13 control tumor cell plasticity in Ewing sarcoma

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

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Other

Platforms:: GPL16791 GPL20301 GPL24676
40 Samples

Download data: BROADPEAK, BW, NARROWPEAK, TXT

Series

Accession:: GSE182513

ID:: 200182513

PubMed Full text in PMC Similar studies

Select item 2001825122.

EWS-FLI1 and HOXD13 control tumor cell plasticity in Ewing sarcoma [CUT&RUN]

(Submitter supplied) Posterior homeobox D genes, in particular HOXD13, are over-expressed by Ewing sarcoma, a tumor driven by the oncogenic fusion protein EWS-FLI1. Here, we have found that EWS-FLI1 maintains HOXD13 expression through a GGAA microsatellite enhancer in the developmental posterior HOXD regulatory domain. RNA-seq of shHOXD13 defined HOXD13-ergulated genes, so we performed CUT&RUN for HOXD13 and histone marks (H3K27ac, H3K4me3, H3K4me1, and H3K27me3) to determine how it regulates target genes.

Organism:: Homo sapiens

Type:: Other

Platform:: GPL16791
22 Samples

Download data: BROADPEAK, BW, NARROWPEAK

Series

Accession:: GSE182512

ID:: 200182512

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001659733.

EWS-FLI1 and HOXD13 control tumor cell plasticity in Ewing sarcoma [CITE-seq]

(Submitter supplied) Posterior homeobox D genes, in particular HOXD13, are over-expressed by Ewing sarcoma, a tumor driven by the oncogenic fusion protein EWS-FLI1. Here, we have found that EWS-FLI1 maintains HOXD13 expression through a GGAA microsatellite enhancer in the developmental posterior HOXD regulatory domain. Activation of this enhancer is EWS-FLI1 dependent and epigenomic silencing of this region leads to loss of HOXD13 expression in Ewing sarcoma cells, but not in unrelated cells. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
1 Sample

Download data: TAR

Series

Accession:: GSE165973

ID:: 200165973

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001484944.

EWS-FLI1 and HOXD13 control tumor cell plasticity in Ewing sarcoma [RNA-seq]

(Submitter supplied) Posterior homeobox D genes, in particular HOXD13, are over-expressed by Ewing sarcoma, a tumor driven by the oncogenic fusion protein EWS-FLI1. Here, we have found that EWS-FLI1 maintains HOXD13 expression through a GGAA microsatellite enhancer in the developmental posterior HOXD regulatory domain. Activation of this enhancer is EWS-FLI1 dependent and epigenomic silencing of this region leads to loss of HOXD13 expression in Ewing sarcoma cells, but not in unrelated cells. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL20301 GPL24676
18 Samples

Download data: TXT

Series

Accession:: GSE148494

ID:: 200148494

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001086315.

Genome-wide maps of EWS-FLI1 binding sites and histone modification in murine Ewing sarcoma cells

(Submitter supplied) We identified global DNA binding properties of EWS-FLI1 in mouse Ewing sarcoma. GGAA microsatellites were found as binding sites of EWS-FLI1 but with less frequency than that in human Ewing sarcoma, and genomic distribution is not conserved between human and mouse.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL9185
6 Samples

Download data: BED, TDF

Series

Accession:: GSE108631

ID:: 200108631

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000909786.

Gene expression profiles of mouse CIC-DUX4 sarcoma

(Submitter supplied) CIC-DUX4 sarcoma (CDS) or CIC-rearranged sarcoma is a subcategory of small round cell sarcoma resembling the morphological phenotypes of Ewing sarcoma (ES). Recent clinicopathologic and molecular genetic analyses indicate that CDS is an independent disease entity from ES. Although a few ancillary markers have been used in the differential diagnosis of CDS, additional CDS-specific biomarkers are needed in challenging diagnosis for a more definitive classification. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL11180
20 Samples

Download data: CEL

Series

Accession:: GSE90978

ID:: 200090978

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000865027.

Gene expression profiles of the mouse model for alveolar soft part sarcoma

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

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL11180
29 Samples

Download data: CEL

Series

Accession:: GSE86502

ID:: 200086502

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000730928.

High-throughput RNAi cell viability screen to identify selective targets for EWS-FLI1 positive Ewing sarcoma

(Submitter supplied) We have performed a high-throughput RNA interference screen to identify targets inhibiting EWS-FLI1 driven cell proliferation in Ewing sarcoma cells. EWS-FLI1 expressing A673 Ewing sarcoma cells were screened both in presence and absence of EWS-FLI1 shRNA induction with druggable siRNA library. Leucine rich repeats and WD repeat Domain containing 1 (LRWD1) targeting siRNA pool was the strongest anti-proliferative hit identified only in presence of EWS-FLI1. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
9 Samples

Download data: TXT

Series

Accession:: GSE73092

ID:: 200073092

Select item 2000688989.

Gene expression profiles of control and EWS-FLI1-transduced neural crest stem cells

(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

Series

Accession:: GSE68898

ID:: 200068898

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006877610.

Exon array profiles of primary human Ewing sarcoma tumors

(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

Series

Accession:: GSE68776

ID:: 200068776

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20009274111.

EWS-FLI1 represses Rho-actin signaling via MRTFB/YAP-1/TEAD perturbation in Ewing Sarcoma

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

Organism:: Homo sapiens

Type:: Expression profiling by array; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL570 GPL11154
58 Samples

Download data: CEL, TXT

Series

Accession:: GSE92741

ID:: 200092741

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20009273912.

EWS-FLI1 represses Rho-actin signaling via MRTFB/YAP-1/TEAD perturbation in Ewing Sarcoma [RNA-Seq]

(Submitter supplied) Ewing Sarcoma (EwS) is a EWS-FLI1- fusion driven pediatric bone cancer with high metastatic potential. Cellular plasticity, typically regulated via the Rho-pathway, is a prerequisite for metastasis initiation. Here we interrogated the role of the Rho transcriptional effectors MRTFA/B in EwS. We find MRTFB transcriptional function strongly repressed by EWS-FLI1. Under EWS-FLI1-low (knock-down) conditions, MRTFB is activated and antagonizes global EWS-FLI1-dependent transcription. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
32 Samples

Download data: TXT

Series

Accession:: GSE92739

ID:: 200092739

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20009273813.

EWS-FLI1 represses Rho-actin signaling via MRTFB/YAP-1/TEAD perturbation in Ewing Sarcoma [Chip-Seq]

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL11154
10 Samples

Download data: TXT

Series

Accession:: GSE92738

ID:: 200092738

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009273714.

EWS-FLI1 represses Rho-actin signaling via MRTFB/YAP-1/TEAD perturbation in Ewing Sarcoma [Affymetrix]

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
16 Samples

Download data: CEL

Series

Accession:: GSE92737

ID:: 200092737

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003740915.

Re-activation of EWS-FLI1 suppressed FOXO1 expression as a novel therapeutic strategy for Ewing´s sarcoma

(Submitter supplied) Transient transfection of a Ewing's Sarcoma cell line expressing type I EWS-FLI1 fusion and doxycycline-inducible short hairpin RNA against EWS-FLI1 (A673sh)

Organism:: Homo sapiens

Type:: Expression profiling by array

Dataset:: GDS4963
Platform:: GPL570
11 Samples

Download data: CEL

Series

Accession:: GSE37409

ID:: 200037409

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 496316.

Transcription factor FOXO1 silencing effect on Ewing Sarcoma cell line

Analysis of Ewing sarcoma cell line A673sh (a doxycycline-inducible, EWS-FLI1-shRNA expressing derivative of A673) transfected with pRS-sh-FOXO1 plasmid targeting FOXO1wt, in the presence or absence of Dox. Results provide insight into FOXO1's contribution to the EWS-FLI1 transcriptional signature.

Organism:: Homo sapiens

Type:: Expression profiling by array, transformed count, 4 protocol sets

Platform:: GPL570
Series:: GSE37409
8 Samples

Download data: CEL

DataSet

Accession:: GDS4963

ID:: 4963

PubMed Full text in PMC Similar studies GEO Profiles Analyze DataSet

Select item 20006773617.

Expression profiling of the TC32 Ewing sarcoma cell line following silencing of SUPT6H, SF3B1 or HNRNPH1

(Submitter supplied) The investigation of the function of SUPT6H, SF3B1 and HNRNPH1 in Ewing sarcoma

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
36 Samples

Download data: IDAT, TXT

Series

Accession:: GSE67736

ID:: 200067736

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006754818.

Expression profiling of Ewing sarcoma cell lines exposed to 5nM Pladienolide B (PlaB) for 24 hours

(Submitter supplied) Identification of genes and pathways altered by PlaB, a bacterial natural product that acts as a spliceosome modulator by targeting the SF3b subunit of the spliceosome

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
24 Samples

Download data: IDAT, TXT

Series

Accession:: GSE67548

ID:: 200067548

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006094919.

EWS-Fli and LNC regulated genes in comparison to GFP samples

(Submitter supplied) RNA from A673 cells with shRNA-mediated knockdown of GFP (4 libraries), EWS-FLI1 (4 libraries), or lnc277 (7 libraries) was isolated with TRIzol (Invitrogen). Each sample was DNase treated and further purified on an RNeasy Mini column (Qiagen) before quality analysis on an Agilent 2100 Bioanalyzer. For each sample, 100-150ng of RNA was synthesized into cDNA, sheared on a Covaris ultrasonicator, and amplified using the NuGen Encore Complete kit (NuGen) to produce strand-specific and rRNA-depleted libraries. more...