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MRNA expression profiling (QuantSeq3' mRNA) analysis of human glioblastoma cell line U87MG treated with ID Family (ID1, ID2, ID3, and ID4) overexpression

ABSTRACT: To understand the changes in the expression of genes in U87MG cells due to ID Family, we analyzed the transcriptome of U87MG cells overexpressing ID Family. As a result, we identify differentially expressed genes patterns so that the signaling mechanism regulated by ID Family in GBM and changes in cells were observed. These mRNA expression profiling analysis results enable an understanding of the signaling mechanism by ID Family in GBM.

ORGANISM(S): Homo sapiens

PROVIDER: GSE182670 | GEO | 2022/07/13

REPOSITORIES: GEO

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mRNA expression profiling (QuantSeq3' mRNA) analysis of human glioblastoma cell line U87MG treated with ID Family (ID1, ID2, ID3, and ID4) overexpression

Project description:mRNA expression profiling (QuantSeq3' mRNA) analysis of human glioblastoma cell line U87MG treated with ID Family (ID1, ID2, ID3, and ID4) overexpression

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Inhibitors of differentiation (ID1, ID2, ID3 and ID4) genes are neuronal targets of MeCP2 that are elevated in Rett syndrome.

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The expression pattern of Id4, a novel dominant negative helix-loop-helix protein, is distinct from Id1, Id2 and Id3.

Project description:Molecular interaction between transcription factors containing an basic-helix-loop-helix (bHLH) domain is known to regulate differentiation in several cellular systems including myogenesis, neurogenesis and haematopoiesis. DNA-binding activity of the bHLH proteins is mediated via the basic region and is dependent upon formation of homo- and/or heterodimers of these transcription factors. Dominant negative (dn) HLH proteins (Id1, Id2, Id3 and emc) also contain the HLH-dimerization domain but lack the DNA-binding basic region. Formation of heterodimers between dnHLH and bHLH proteins abolishes the DNA-binding activity of the latter. Concordantly, it was shown that the dnHLH protein Id1 inhibits differentiation of muscle and myeloid cells in vitro. Therefore, it was postulated that dnHLH proteins serve as general antagonists of cell differentiation. We have isolated and characterized a novel mouse dnHLH gene, designated Id4. The Id4 protein contains a HLH domain highly conserved among the dnHLH proteins from mouse and drosophila. Outside of the HLH domain, three additional short regions of the dnHLH proteins show some degree of homology. DNA-binding of E47 homo- as well as E47/MyoD heterodimers is inhibited by Id4. Transcription of the Id4 gene results in three RNA molecules of 3.7, 2.0 and 1.7 kb which are presumably a result of differential splicing and/or alternatively used polyadenylation sites within the 3' untranslated region. During embryogenesis, Id4 expression is up-regulated between day 9.5 and 13.5 of gestation. The highest expression in adult tissues was detected in testis, brain and kidney. Comparison of the expression patterns of the four mouse dnHLH genes revealed that Id4 expression differs from the more restricted expression of Id2 as well as from the widespread expression of Id1 and Id3.

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Establishment of radioresistant U87MG glioblastoma cell line

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RNA sequencing analysis of human glioblastoma cell line U87MG treated with LMO2 overexpression.

Project description:To understand the changes in the expression of genes in U87MG cells due to LMO2, we analyzed the transcriptome of U87MG cells overexpressing LMO2. As a result, we identify differentially expressed genes patterns so that the signaling mechanism regulated by LMO2 in GBM and changes in cells were observed. These RNA sequencing analysis results enable an understanding of the signaling mechanism by LMO2 in GBM.

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HOXA9 transcriptomic analysis in GBM cell lines (U87MG, U251 and primary GBML18) and in immortalized human astrocytes (hTERT/E6/E7)

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HOXA9 transcriptomic analysis in GBM cell lines (U87MG, U251 and primary GBML18) and in immortalized human astrocytes (hTERT/E6/E7)

Project description:Assess gene expression patterns upon HOXA9 ectopic expression in U87MG GBM cell line and hTERT/E6/E7 immortalized human astrocytes, and HOXA9 silencing in U251 and GBML18 GBM cell lines. U87MG and hTERT/E6/E7 were retrovirally-infected with an MSCV control vector (MSCV-Control) or with a construct containing the coding region of HOXA9 (MSCV-HOXA9), resulting in U87MG-Control, U87MG-HOXA9, hTERT/E6/E7-Control and hTERT/E6/E7-HOXA9 cell lines. GBML18 and U251 cells were transfected with HOXA9 gene-specific shRNA sequences (shHOXA9) or a non-efective shRNA (shControl) in pGFP-V-RS plasmid, resulting in U251-shControl, U251-shHOXA9, GBML18-shControl and GBML18-shHOXA9 cell lines. Four experimental replicates for HOXA9 overexpression cell lines, and three for HOXA9 silencing cell lines were performed.

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Gene expression data in U87MG cell line transfected with NeuroD2-overexpression and control vector

Project description:NeuroD2 is downregulated in glioblastoma (GBM) tumor samples. The study identifies the genes regulated by NeuroD2 in GBM cell lines grown under hypoxia We used human primeview gene expression microarray chips to assess the mRNA expression profile in response to NeuroD2 overexpression in U87MG cells under hypoxic microenvironment.

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Gene expression data in U87MG cell line transfected with miR-490 overexpression vector PC-490 or its control PCDNA3.1 (+).

Project description:miR-490 is robustly downregulated in GBM tumour samples. This study identifies the genes differentially expressed upon miR-490 overexpression in U87MG glioblastoma cell line. GeneChip PrimeView Human Gene Expression Array was used to assess mRNA expression profile in response to miR-490 overexpression in U87MG cell line.

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