Similar studies for GEO DataSets (Select 200126147) - GEO DataSets

(Submitter supplied) MEK inhibitor trametinib induces SMS-CTR cell differentiation and up-regulates CASZ1 expression. We identified genome-wide binding sites of CASZ1 in differentiated SMS-CTR cells.

Organism:: Homo sapiens

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

Platform:: GPL18573
4 Samples

Download data: BW

Series

Accession:: GSE126143

ID:: 200126143

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001261426.

Genome-wide mapping of CASZ1b binding sites and investigate its effect on chromatin status in SMS-CTR cells [CTRtetCASZ1b]

(Submitter supplied) In SMS-CTR cells, we identified genomewide binding sites of CASZ1b. The overexpression of CASZ1b in SMS-CTR cells led to a regional epigenetic modification.

Organism:: Homo sapiens

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

Platform:: GPL18573
14 Samples

Download data: BW

Series

Accession:: GSE126142

ID:: 200126142

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001261417.

The affect of loss of Casz1 in C2C12 cells on super-enhancers

(Submitter supplied) In the differereniated C2C12 cells, knockdown of Casz1 leads to a re-establishment of super-enhancers

Organism:: Mus musculus

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

Platform:: GPL19057
6 Samples

Download data: BW

Series

Accession:: GSE126141

ID:: 200126141

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001261408.

Investigate the affect of CASZ1b on chromatin accessibility in SMS-CTR cells

(Submitter supplied) In SMS-CTR cells, the overexpression of CASZ1b in SMS-CTR cells led to a modification of regional chromation accessibility.

Organism:: Homo sapiens

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

Platform:: GPL18573
2 Samples

Download data: BW

Series

Accession:: GSE126140

ID:: 200126140

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001371689.

Liaison between SNAI2 and MYOD enhances oncogenesis and suppresses differentiation in Fusion-Negative Rhabdomyosarcoma

(Submitter supplied) Rhabdomyosarcoma (RMS) is a pediatric malignancy of mesenchymal origin. Fusion Negative-RMS (FN-RMS) tumors are associated with RAS-pathway activation. RMS tumors express pro-differentiation myogenic transcription factors MYOD and MYOG, yet why they are unable to differentiate is poorly understood. Here we show that SNAI2 is highly expressed in FN-RMS, is regulated by MYOD and blocks myogenic differentiation promoting growth. more...

Organism:: Homo sapiens

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

Platform:: GPL18573
22 Samples

Download data: HIC, NARROWPEAK, TXT

Series

Accession:: GSE137168

ID:: 200137168

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

Select item 20012799810.

Genome-wide maps of Twist2-binding, MyoD-binding and chromatin state in Twist2-overexpressing Twist2+ cells

(Submitter supplied) Integrated analysis of genome-wide ChIP-Seq and RNA-Seq data revealed the first dynamic chromatin and transcriptional landscape of Twist2 binding during myogenic differentiation. During differentiation, Twist2 competes with MyoD at shared DNA motifs to direct global gene transcription and repression of the myogenic program. Additionally, TWIST2 shapes the epigenetic landscape to drive chromatin opening at oncogenic loci and chromatin closing at myogenic loci. more...

Organism:: Mus musculus

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

Platform:: GPL19057
34 Samples

Download data: BIGWIG

Series

Accession:: GSE127998

ID:: 200127998

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20005518611.

The Hippo tranducer YAP1 transforms activated satellite cells and is a potent effector of embryonal rhabdomyosarcoma formation

(Submitter supplied) The Hippo pathway effector YAP1 controls stem cell fate in epithelial tissues, but its role in stem cells of non-epithelial tissues, such as skeletal muscle, is poorly documented. Here we show that sustained YAP1 activity in mouse activated satellite cells in vivo induces rhabdomyosarcoma (RMS) resembling human embryonal RMS (ERMS) with high penetrance and short latency. The transcriptional program of YAP1 in ERMS drives pro-proliferative pathways whilst decreasing MyoD1 and MEF2 pro-differentiation activity to globally maintain the myoblastic phenotype of ERMS. more...

Organism:: Homo sapiens; Mus musculus

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

Platforms:: GPL13112 GPL11154
4 Samples

Download data: BED

Series

Accession:: GSE55186

ID:: 200055186

PubMed Similar studies SRA Run Selector

Select item 20004719812.

Role of Yes-Associated Protein 1 (YAP1) in rhabdomyosarcoma

(Submitter supplied) Doxycycline-inducible YAP1 S127A-driven rhabdomyosarcoma (RMS) tumors, control skeletal muscle and regressed tumors following YAP1 normalization by doxycycline withdrawal were compared to determine the YAP1-regulated gene expression profile relevant to RMS formation. To characterize the role of YAP1 in embryonal RMS at the molecular level and identify a gene signature for YAP1 activity readout, we compared the gene expression profiles of our YAP1-driven ERMS with control donor skeletal muscle (SKM) and doxycycline-withdrawn regressing tumors by microarray (doxycycline withdrawal for 3 or 6 days; OFF3 and OFF6, respectively). more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6246
12 Samples

Download data: CEL

Series

Accession:: GSE47198

ID:: 200047198

Select item 20017315513.

RNA-Seq and ChIP-Seq in SIX1 deficient Rhabdomyosarcoma cells

(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:: GPL24676 GPL18573
21 Samples

Download data: TDF

Series

Accession:: GSE173155

ID:: 200173155

PubMed Full text in PMC Similar studies

Select item 20017315114.

Chromatin states and transcription factor binding in SIX1 deficient Rhabdomyosarcoma cells

(Submitter supplied) Genetic and shRNA-mediated inhibition of SIX1 expression in RMS cells induces myogenic differentiation and impedes RMS tumor growth. To elucidate the mechanism by which SIX1 loss activates a differentiation program, we performed SIX1, MYOD1, and H3K27ac ChIPseq in two SIX1 knockdown SMS-CTR cell lines and one control SMS-CTR cell line to profile changes in transcriptional activity and myogenic transcription factor binding in fusion-negative Rhabdomyosarcoma.

Organism:: Homo sapiens

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

Platform:: GPL18573
12 Samples

Download data: TDF

Series

Accession:: GSE173151

ID:: 200173151

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20017315015.

Transcriptomes of SIX1 deficient and control Rhabdomyosarcoma cells

(Submitter supplied) Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived retinal transcriptome profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis Genetic and shRNA-mediated inhibition of SIX1 expression in RMS cells induces myogenic differentiation and impedes RMS tumor growth. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
9 Samples

Download data: TXT

Series

Accession:: GSE173150

ID:: 200173150

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

Select item 20016968116.

Knockdown of Ino80 complex subunits Actr5, Ies6, and Ino80 in RD cells

(Submitter supplied) INO80 complex is an ATPase-dependent chormatin remodeling complex, which regulates various DNA metabolic processes such as DNA replication and repair. Additionally, INO80 complex also contributes to the regulation of gene expression in sterss response and development. In order to investigate the function of INO80 complex in rhabdomyosarcoma, we examined the knockdown of subunits of INO80 complex Actr5, Ies6, and Ino80 in human rhabdomyosarcoma RD cells. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL20844
4 Samples

Download data: TXT

Series

Accession:: GSE169681

ID:: 200169681

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20008517117.

Epigenetic Reprogramming of mutant RAS-driven Rhabdomyosarcoma via MEK Inhibition

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

Organism:: Mus musculus; Homo sapiens

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

Platforms:: GPL18573 GPL1261 GPL11154
60 Samples

Download data: BED, CEL, FPKM_TRACKING

Series

Accession:: GSE85171

ID:: 200085171

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20008517018.

MEK inhibition rewires enhancer landscapes in RAS-driven Rhabdomyosarcoma to unlock a myogenic differentation block

(Submitter supplied) Trametinib-treated rhabdomyosarcoma cells undergo transcriptional reprogramming akin to myogenic differentiation. This reprogramming is induced by loss of ERK-mediated inhibition of MYOG expression. Restoration of MYOG allows establishment of super-enhancers at genes expressed by terminally differentiated myotubes. Our findings demonstrate that aberrant MAP kinase activity blocks differentiation in rhabdomyosarcoma and highlight trametinib as a potential therapeutic for RAS-mutated rhabdomyosarcoma.