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ABSTRACT: Transcriptome of medulloblastoma cell line DAOY

PROVIDER: PRJNA517338 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8492500_1.fastq.gz	Fastqsanger.gz
	SRR8492500_2.fastq.gz	Fastqsanger.gz
	SRR8492491_1.fastq.gz	Fastqsanger.gz
	SRR8492491_2.fastq.gz	Fastqsanger.gz
	SRR8492501_1.fastq.gz	Fastqsanger.gz

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LC-MS/MS analysis of Daoy and UW228 medulloblastoma cell lines

Project description:The goal of this study was to profile the total proteome and transcriptome of the established medulloblastoma cell lines, Daoy and UW228, using label-free nano-LC-MS/MS-based quantitative proteomics and high-throughput RNA sequencing (RNA-Seq), coupled with pathway analysis to identify differentially expressed genes, proteins and signaling pathways with potential as prognostic markers. A total of 14250 and 12870 transcripts were detected for Daoy and UW228, respectively. Proteomic profiling identified 2630 and 1235 proteins in Daoy and UW228, representing 18% and 10% of detected transcripts, respectively. Interestingly, Daoy proteome included >50% unique proteins, while almost 90% of proteins expressed by UW228 were commonly expressed in Daoy. Differential expression of a number of adhesion, cytoskeletal and signaling molecules were observed between the two cell lines. Upregulation of a number of proteins and enrichment of key signaling pathways, including WNT, Sonic hedgehog (SHH) and integrin signaling pathways, were uniquely observed in MB cell lines, in particular in Daoy.

2017-10-27 | PXD002659 | Pride

Culturing of Daoy cells in astrocyte conditioned media

Project description:Astrocytes are important cells within the medulloblastoma microenvironment. Therefore, we assessed how astrocyte secreted factors may alter Daoy (human MB cell line; ATCC HTB-186) cell gene expression.

2020-04-14 | GSE148540 | GEO

Genome-wide gene expression profile of human medulloblastoma cell lines

Project description:To study the effect of constitutive REST expression on DAOY, UW228 and UW426 cells, we generated low and high-REST (LR/HR) isogenic pairs of the three human medulloblastoma (MB) cell lines and performed RNA-Seq analysis. We also analyzed the expression profiles of D283 cells (Group3/4 MB cell line) with DAOY, UW228 and UW26 (SHH MB cell line ) to show the subgroup specific expression profiles.

2021-01-16 | GSE164887 | GEO

DNase-seq from Daoy (ENCSR346IHH)

Project description:DNase-seq on cell line Daoy (polygonal cell from 4 year old male human cerebellum, desmoplastic cerebellar medulloblastoma) For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

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Medulloblastoma associated DDX3X mutants restore malignant potential of medulloblastoma cells decreased upon the loss of DDX3X expression

Project description:DDX3X is an ATP-dependent RNA helicase. Missense mutations in DDX3X gene are known to occur in WNT, SHH subgroup medulloblastomas. The role of DDX3X in medulloblastoma biology was studied by downregulating its expression in a SHH subgroup Daoy medulloblastoma cell line. DDX3X knockdown resulted in considerable reduction in proliferation, clonogenic potential and anchorage-independent growth of the medulloblastoma cells. Transcriptome analysis was performed to delineate the molecular mechanism underlying reduction in the malignant potential of the medulloblastoma cells upon DDX3X knockdown. Exogenous expression of three DDX3X missense mutants in the DDX3X knockdown cells could restore the malignant potential of the medulloblastoma cells.

2023-03-31 | GSE201967 | GEO

Daoy gene expression

Project description:Using measurements of absolute protein and mRNA concentrations in cellular lysate from a Daoy medulloblastoma cell line, we quantitatively evaluate the influence of absolute transcript levels and a large number of sequence-encoded regulatory elements on steady-state human protein expression levels.

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Elevating Sox2 levels deleteriously affects the growth of glioblastoma and medulloblastoma cells.

Project description:Induction of the transcription factor Sox2 from a doxycycline-inducible promoter in iSox2-DAOY medulloblastoma cells. Affymetrix microarrays were used to characterize the gene expression profile of iSox2-DAOY cells in the absence and presence of doxycycline. Human DAOY medulloblastoma cells were engineered to express epitope tagged Sox2 under the control of a doxycycline inducible promoter, to produce iSox2-DAOY cells. iSox2-DAOY cells were FACS sorted into CD133 low and high populations. The CD133 low population was cultured in the absence and presence of 0.5 Âµg/mL doxycycline for 24 hours. RNA was extracted from cells cultured without and with doxycycline, and was used for microarray analysis.

2012-08-25 | E-GEOD-36947 | biostudies-arrayexpress

VAPB regulates proliferation in medulloblastoma

Project description:RNA sequencing of medulloblastoma cell lines DAOY and USP13-med; wild type and VAPB KO.

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Daoy gene expression

2010-04-22 | E-GEOD-20492 | biostudies-arrayexpress

miRNA expression profile in human medulloblastoma cell lines.

Project description:We deep sequenced and analyzed miRNAs using small RNA sequencing in six medulloblastoma cell lines (SHH: DAOY and ONS-76, Group 3: D341 and D425, Group 4: CHLA-01-MED and CHLA-01R-MED).

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