Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of PDGF-dependent patterns of gene expression in U87 glioblastoma cells

ABSTRACT: Overall study: Identification of PDGF-dependent patterns of gene expression in U87 glioblastoma cells. RNA was obtained from triplicate dishes of 5 different groups of U87 cells, each (total 15) analyzed with one U95 microarray chip. Three different comparisons were made: 1) Clone 3.1 (34580-34582) vs. clone 3.3 (34583-34585) vs. parent U87 (34592-34594). Purpose: demonstrate that the gene expression profiles between these 3 cell lines are not different, so they could be pooled as a single untreated group. 2) Pooled control group (34580-34585, 34592-34594) vs. clone 8.1 (34586-34588). Purpose: identify genes specifically controlled by autocrine PDGF activity. 3) Clone 8.1 (34586-34588) vs. clone 8.1 treated with PDGF (34589-34591) Purpose: Identify genes specifically induced by exogenous PDGF. Keywords = platelet-derived growth factor Keywords = glioblastoma Keywords = brain cancer Keywords = sterol regulatory element binding protein Keywords = SREBP Keywords: ordered

ORGANISM(S): Homo sapiens

PROVIDER: GSE1923 | GEO | 2004/12/10

SECONDARY ACCESSION(S): PRJNA90949

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of human U87 wild type, neo-resistant and PDGF-A dominant negative U87 gliobastoma cells to identify PDGF-dependent patterns of gene expression

Project description:Overall study: Identification of PDGF-dependent patterns of gene expression in U87 glioblastoma cells. RNA was obtained from triplicate dishes of 5 different groups of U87 cells, each (total 15) analyzed with one U95 microarray chip.,Three different comparisons were made:,1) Clone 3.1 (34580-34582) vs. clone 3.3 (34583-34585) vs. parent U87 (34592-34594).,Purpose: demonstrate that the gene expression profiles between these 3 cell lines are not different, so they could be pooled as a single untreated group.,2) Pooled control group (34580-34585, 34592-34594) vs. clone 8.1 (34586-34588).,Purpose: identify genes specifically controlled by autocrine PDGF activity.,3) Clone 8.1 (34586-34588),vs. clone 8.1 treated with PDGF (34589-34591),Purpose: Identify genes specifically induced by exogenous PDGF.

2007-12-12 | E-GEOD-1923 | biostudies-arrayexpress

Homo sapiens

Project description:Identification of PDGF-dependent patterns of gene expression in U87 glioblastoma cells

| PRJNA90949 | ENA

Glioblastoma Cell lines vs. Normal Glial Cells

Project description:Examination of alternative splicing in 4 glioblastoma cell lines (U118, t98g, a172, U87) vs. FGG cells grown in culture. 4 Cancer Cell lines vs. Normal Cells in a dye-swap design with 2 replicates in each dye orientation (4 tumor lines x 2 reps x 2 dye-orientations = 16 arrays)

2011-04-07 | E-GEOD-20723 | biostudies-arrayexpress

Transcription profiling array of human glioblastoma cell line U87 comparing control cells with U87-shLIN7a knockdown cells and rescue cells which have the same Lin7a knockdown but re-express Lin7a lentivirally (U87-shLin7a+Lin7A)

Project description:After performing an in-vivo screening with U87 glioblastoma cells transduced with a knockdown library several genes could be identified. Lin7a which was one of the candidates was further evaluated. Single knockdown of Lin7a in U87 conferred a pro-invasive phenotype in-vitro and in-vivo. Overexpression of Lin7a in the Primary glioblastoma cell line T269 reduced its invasive phenotype. To decipher the underlying pathways U87 control, U87-shLIN7a and U87-shLin7a+Lin7A (rescue cells after re-expression of Lin7A) were analyzed after in-vitro culture by a transcription profiling Array.

2017-08-27 | E-MTAB-5871 | biostudies-arrayexpress

Epigenome analysis of control and mTORC2-suppressed glioblastoma cells

Project description:Genome wide DNA methylation profiling of control and mTORC2-suppressed glioblastoma cells (U87-EGFRvIII cells). The Illumina Infinium HumanMethylation EPIC BeadChip Array was used to obtain DNA methylation profiles with 865,918 probes in glioblastoma cell line samples. Samples included 2 control U87-MG cells without mTORC2 suppresion, and mTORC2-knockdown U87-MG cells with lentivirus-mediated suppression of mTORC2.

2024-03-20 | GSE235207 | GEO

Glioblastoma Cell lines vs. Normal Glial Cells

Project description:Examination of alternative splicing in 4 glioblastoma cell lines (U118, t98g, a172, U87) vs. FGG cells grown in culture. SUBMITTER_CITATION: Jonathan Gelfond, Lee Ann Zarzabal, Tarea Burton, Suzanne Burns, Mari Sogayar, Luiz O. F. Penalva. Latent rank change detection for analysis of splice-junction microarrays with nonlinear effects. Annals of Applied Statistics 2011, Vol. 5, No. 1, 364-380

2011-04-07 | GSE20723 | GEO

Cross-Species Comparison Identifies Proneural specific patterns of genetic alterations in Glioblastoma

Project description:The determinants of the genetic complexity of Glioblastoma are poorly understood. We generated murine Glioblastomas by transforming glial progenitors in the adult brain with PDGF expression and PTEN deletion +/- p53 deletion. PDGF+PTEN-/- tumors developed additional deletions of specific genes in up to 100% of the tumors, whereas PDGF+PTEN-/-p53-/- tumors did not. Cross-species comparison with data from tCGA database and published in Verhaak, 2010, showed that consistent genetic deletions observed in mouse tumors were specific to human Proneural Glioblastoma. These findings show that the genetic alterations that accumulate during tumor progression are determined by the initiating genetic alterations and by the cellular context in which they occur. Murine gliomas were induced in vivo by retroviral mediated PDGF overexpression, PTEN deletion with or without p53 deletion using Cre/lox system. Tumors were subsequently harvested for sequencing and aCGH analysis. Paired liver DNA was used for hybridization. For PDGF+PTEN-/- tumors, different timepoints were obtained including 21, 35 days post tumor induction, as well as endstage tumors.

2014-01-17 | E-GEOD-36940 | biostudies-arrayexpress

Gene profiling: U87 IRE1 dominant negative cells vs. U87ctrl cells in culture

Project description:Transcriptome analysis was performed from human U87 glioblastoma cell clones: U87 IRE1.NCK DN (U87dn, IRE1 dominant negative) and U87 control (U87ctrl, empty plasmid). Cells were grown in DMEM supplemented with 10% FBS and glutamine for 16 hours in culture prior mRNA isolation and analyses

2010-08-08 | GSE22385 | GEO

In situ-synthesized novel microarray optimized for mouse stem cell and early developmental expression profiling: Part2

Project description:E12.5 mouse whole embryos and placentas were pooled within 3 litters and total RNA was extracted. Fluorescently-labeled, linearly-amplified cRNA targets were prepared from the RNA samples and compared on a novel microarray design to validate the system. A "self-versus-self" experimental design was used to assess the false-positive rates in the system. The in situ-synthesized 60-mer oligonucleotide microarray platform contains approximately 22,000 DNA features, and was designed to detect transcripts from the entire NIA cDNA clone collection. Keywords: self vs self design

2005-10-28 | GSE3513 | GEO

PDGF-driven glioblastoma mouse model scRNA-Seq

Project description:Generate scRNA-Seq profiles for PDGF-driven glioblastoma mouse model.

2018-02-23 | GSE95157 | GEO