GEO DataSets

(Submitter supplied) The main goal of the project was to analyze the effect of SNAIL transcription factor on microRNA expression profile in rhabdomyosarcoma (RMS) cells using the next generation sequencing. Differential expression of microRNAs between three groups was compared in RH30 alveolar RMS cells: WT (WT), shCTRL (modified with control shRNA vector) and shSNAIL (modified with shRNA against SNAIL). Different groups were compared to investigate the effect of SNAIL silencing on microRNA up- or downregulation.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18573

9 Samples

Download data: TSV

(Submitter supplied) ChIP-seq analysis of SNAIL binding sites in RH30 cells was performed to discover novel SNAIL binding sites in rhabdmyosarcoma cells.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL16791

2 Samples

Download data: XLS

(Submitter supplied) Interrogation of microRNA expression and regulation by PAX3-FOXO1 in Fusion-Positive Rhabdomyosarcoma.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL19730

25 Samples

Download data: TXT

(Submitter supplied) To investigate the role of TGF-β1-regulated miRNAs in the progression of RMS,we performed comprehensive miRMA microarray analysis on RNA derived from typical RMS cell lines and TGF-β1 knock-down cell lines. We identified a novel set of TGF-β1-related miRNAs.

Organism:

Homo sapiens; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Betapolyomavirus hominis; Human alphaherpesvirus 2; Murid gammaherpesvirus 4; Mus musculus cytomegalovirus 2; Betapolyomavirus macacae; Mus musculus; Rattus norvegicus; Murid betaherpesvirus 1; JC polyomavirus; Human immunodeficiency virus 1; Human gammaherpesvirus 8; Merkel cell polyomavirus

Type:

Non-coding RNA profiling by array

Platform:

GPL11434

6 Samples

Download data: TXT

(Submitter supplied) The differentiation and regeneration of skeletal muscle from myoblasts to myotubes involves myogenic transcription factors, such as myocardin-related transcription factor A (MRTF-A) and serum response factor (SRF). In addition, post-transcriptional regulation by miRNAs is required during myogenesis. Here we provide evidence for novel mechanisms regulating MRTF-A during myogenic differentiation. Endogenous MRTF-A protein abundance and activity decreased during C2C12 differentiation, which was attributable to miRNA-directed inhibition. more...

Organism:

Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16173

18 Samples

Download data: CSV

(Submitter supplied) Patients with ulcerative colitis (UC) are at increased risk for colorectal cancer although mechanisms remain poorly understood. We sought to evaluate the role of miRNAs in neoplasia development in this high-risk population

Organism:

Homo sapiens

Type:

Expression profiling by array; Other

Platform:

GPL20111

45 Samples

Download data: TXT

(Submitter supplied) Genes regulated by miR-206 were identified by microarray analysis in RD cells transfected with a Negative Control (NC) or miR-206 Mimic

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16686

8 Samples

Download data: CEL

(Submitter supplied) The genome-wide miRNA expression analysis was performed in clinical samples, comprising 15 BRAF-mutant and 15 non-KRAS/BRAF-mutant colorectal cancers by using a SurePrint G3 Human miRNA microarray.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL16770

30 Samples

Download data: TXT

(Submitter supplied) we analyzed transcriptomic profiles in LLC cells isolated from primary cancer sites. C57BL/6 mice were subcutaneously injected with LLC-RFP with or without BMSCs.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23479

6 Samples

Download data: TXT

(Submitter supplied) Exosomal miRNAs including 86 exosomal miRNAs were significantly increased and 354 exosomal miRNAs were significantly decreased in the co-injection group compared to LLC injection alone through expression profiling of a total of 1903 genes.

Organism:

Mus musculus

Type:

Non-coding RNA profiling by array

Platform:

GPL21265

2 Samples

Download data: TXT

(Submitter supplied) MiRNA microarray analysis was performed on exosomes secreted by mouse MSC cells under two different conditions of normal oxygen and hypoxia, in order to find out the different miRNAs in exosomes secreted by MSC under two different conditions.

Organism:

Mus musculus

Type:

Non-coding RNA profiling by array

Platform:

GPL22383

2 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

54 Samples

Download data: CEL

(Submitter supplied) To investigate the mechanisms of kidney tumor progression and metastasis, we performed expression profiling of human kidney cancer and benign tissues.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

26 Samples

Download data: CEL

(Submitter supplied) To investigate the mechanisms of ccRCC progression and metastasis, we performed expression profiling of human kidney cancer and benign tissues.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

28 Samples

Download data: CEL

(Submitter supplied) Through small RNA sequencing, we finded that a total of 8 miRNAs, including miR-133a-3p and miR-1a-3p cluster, showed differential expression after guanidineacetic acid supplement. To further study the function of miR-133a-3p and miR-1a-3p in guanidineacetic acid induce myotube hypertrophy, we transfected miR-133a-3p and miR-1a-3p mimics, that also induce myotube hypertrophy. Through bioinformatics and dual-luciferase reporter system, the target gene of miR-133a-3p and miR-1a-3p were respectively determined. more...

Organism:

Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17021

4 Samples

Download data: TXT

(Submitter supplied) Fusion-negative rhabdomyosarcoma (FN-RMS) is the most common soft tissue sarcoma of childhood arising from undifferentiated skeletal muscle cells. Tumor cells derived from genetically engineered murine models are a valid tool to study cancer biology. In order to investigate the poor myogenic commitment of FN-RMS, we performed RNA sequencing of two cell lines derived from a previously described genetically engineered murine model of FN-RMS. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Third-party reanalysis

Platform:

GPL21103

2 Samples

Download data: CSV

(Submitter supplied) Rhabdomyosarcoma (RMS) is an aggressive pediatric cancer in need of novel therapies. Here we show that the PROX1 transcription factor, which is essential for myoblast differentiation, is highly expressed in RMS tumors. We demonstrate that PROX1 regulates RMS cell proliferation, stemness and rhabdosphere formation in vitro and RMS tumor formation in mouse xenograft models. By using proximity labeling and mass spectrometry, we found that PROX1 interacts with the NuRD and CoREST (HDAC) complexes. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

8 Samples

Download data: TSV

(Submitter supplied) In order to identify the specific DNA methylation pattern of different rhabdomyosarcoma (RMS) samples we performed a genome-wide study using Human DNA methylation platform (Agilent).

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL19930

15 Samples

Download data: TXT

(Submitter supplied) The goal of this study was to understand the function and mechanisms of action of the chromatin factor KDM3A in the pediatric soft tissue cancer Rhabdomyosarcoma

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

12 Samples

Download data: TXT

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

Organism:

Arabidopsis thaliana; Sorghum bicolor; Caenorhabditis briggsae; Caenorhabditis elegans; Anopheles gambiae; Drosophila melanogaster; Drosophila pseudoobscura; Apis mellifera; Xenopus laevis; Xenopus tropicalis; Ateles geoffroyi; Gorilla gorilla; Bos taurus; Mus musculus; Rattus norvegicus; Human gammaherpesvirus 8; Macacine gammaherpesvirus 4; Saguinus labiatus; Tetraodon nigroviridis; Physcomitrium patens; Zea mays; Danio rerio; Macaca mulatta; Pan troglodytes; Pongo pygmaeus; human gammaherpesvirus 4; Gallid alphaherpesvirus 2; Schmidtea mediterranea; Betapolyomavirus macacae; Populus trichocarpa; Glycine max; Medicago truncatula; Gallus gallus; Pan paniscus; Ovis aries; Murid gammaherpesvirus 4; Oryza sativa; Saccharum officinarum; Bombyx mori; Lemur catta; Lagothrix lagotricha; Macaca nemestrina; Homo sapiens; Canis lupus familiaris; Sus scrofa; Human betaherpesvirus 5; Monodelphis domestica; Takifugu rubripes

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL10558 GPL6844

16 Samples

Download data: GPR