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PTPRZ1 disruption-mediated gene expression changes in human glioblastoma stem cells [HG-U133_Plus_2]

ABSTRACT: Glioblastoma is the most aggressive and lethal malignant brain tumor. Gene expression profiling is useful in determining the genome-wide gene expression changes based on the experimental purpose. In order to interrogate the downstream targets of PTPRZ1, we applied gene expression profiles to screen the altered genes that are responsible for the functional phenotype changes. The results will provide a cue for mechanical analysis with potential translational values.

ORGANISM(S): Homo sapiens

PROVIDER: GSE68994 | GEO | 2015/05/21

SECONDARY ACCESSION(S): PRJNA284495

REPOSITORIES: GEO

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PTPRZ1 disruption-mediated gene expression changes in human glioblastoma stem cells [HG-U133_Plus_2]

Project description:Glioblastoma is the most aggressive and lethal malignant brain tumor. Gene expression profiling is useful in determining the genome-wide gene expression changes based on the experimental purpose. In order to interrogate the downstream targets of PTPRZ1, we applied gene expression profiles to screen the altered genes that are responsible for the functional phenotype changes. The results will provide a cue for mechanical analysis with potential translational values. PTPRZ1-knocking down glioblastoma stem cells (GSCs) and control GSCs were used in this study. RNA were isolated using Primescript RT Master Mix (Takara). Profiling was established by applying Affymetrix GeneChip Human Genome U133 Plus 2.0 Array.

2015-05-21 | E-GEOD-68994 | biostudies-arrayexpress

Gene expression profiles of PTPRZ1-knocking-down human glioblastoma stem cells [PrimeView]

Project description:Glioblastoma stem cells (GSCs), are at the apex of its cellular hierarchy and contribute to glioblastoma progression and tumor recurrence. Gene expression profiling is useful in determining the genome-wide gene expression changes based on the experimental purpose. In order to interrogate the downstream targets of PTPRZ1, we applied gene expression profiling approach to screen the altered genes that are responsible for the functional phenotype changes. The results will provide a cue for mechanical analysis with potential translational values. PTPRZ1-knocking down glioblastoma stem cells (GSCs) and control GSCs were used in this study. RNA were isolated using Primescript RT Master Mix (Takara). Profiling was established by applying PrimeView Affymetrix Human Gene Expression Array.

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Gene expression profiles of PTPRZ1-knocking-down human glioblastoma stem cells [PrimeView]

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Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Ptprz1-/- lung microvascular endothelial cell (LMVEC) Transcriptomes

Project description:Purpose: To compare NGS-derived transcriptome profiling (RNA-seq) between Wild Type and Ptprz1-/- LMVEC and identify transcripts that may be linked to the phenotypic differences observed. Methods: Total RNA from freshly cultured LMVEC was extracted using the NucleoSpin RNA Plus kit from Macherey-Nagel and the concentration and purity was assessed by Nanodrop and gel agarose 1% in TBE 0.5x. RNA from 3 independent fresh cell isolations from the Ptprz1+/+ and the Ptprz1-/- LMVEC was extracted and sent for RNAseq analysis. Novogene Co., Ltd performed the mRNA isolation, cDNA library synthesis and sequencing, and the bioinformatics analysis. Results: Pairwise comparison of gene expression of Ptprz1-/- RNA (3 samples) against Ptprz1+/+ RNA (3 samples) identified several transcripts as differentially expressed. Twenty-six genes were significantly changed (adj. p value <0.05), with 9 being upregulated and 17 downregulated. These genes are linked to angiogenesis and heart development and function. Conclusions: Our study represents the first transcriptomic analysis of Ptprz1-/- endothelial cells compared to the corresponding wild-type cells, generated by RNA-seq technology.

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Regulation of gene expressions in vivo by anti-VEGF and anti-Notch therapy [HG-U133_Plus_2]

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