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Next Generation Sequencing Facilitates Quantitative Analysis of DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells [RNA-seq]

ABSTRACT: To elucidate whether p85β nuclear translocation plays a role in cancer tumorigenesis, a RNA-seq analysis was performed to compare the gene expression profiles of DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells

ORGANISM(S): Homo sapiens

PROVIDER: GSE190740 | GEO | 2021/12/15

REPOSITORIES: GEO

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Next Generation Sequencing Facilitates Quantitative Analysis of DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells [RNA-seq]

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells [RNA-seq]

| PRJNA788290 | ENA

Genome-wide maps of chromatin state of H3K27me3 in DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells [ChIP-seq]

Project description:We performed ChIP coupled with high-throughput sequencing (ChIP-seq) for H3K27me3 in DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells

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Genome-wide maps of chromatin state of H3K27me3 in DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells [ChIP-seq]

Project description:Genome-wide maps of chromatin state of H3K27me3 in DLD1 parental cells and DLD1 p85β K477A/R478A mutant cells [ChIP-seq]

| PRJNA787125 | ENA

DLD1

Project description:DLD1 is an APC mut, KRAS mut, P53 mut CRC cell line. PROX1 transcription factor, target of Wnt pathway in CRC, is our protein of interest.DLD1 cells are PROX1 negative. We overexpressed through lentiviral expression PROX1 protein or the empty vector psd44, through selection of the cells in puromycin resistance. Afterwards we compared the transcriptional program of the DLD1-PROX1 and DLD1-Control cells growing in monolayer in vitro.

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Expression data from DLD1 cells following H19 knockdown

Project description:Knockdown of H19 leads to cell cycle arrest, reduced cell proliferation, and reduced cell migration in DLD1 cells. We used microarrays to detail the global programme of gene expression following H19 knockdown in DLD1 cells

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Project description:Transcriptional profiling of human colorectal cell DLD1 transfected by shRNA_Control or shRNA_FOXQ1 respectively.

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FOXA1 ChIP-chip in DLD1 cells

Project description:FOXA1 recruitment sites within chromosomes 8, 11 and 12 were analyzed by ChIP-chip in DLD1 cells

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Next Generation Sequencing Facilitates Quantitative Analysis of HCC827 and HCC827/GR cells Transcriptomes

Project description:HCC827 cells were obtained from American Type Culture Collection, and the gefitinib resistant HCC827/GR cells were established by gradient dose treatment for parental cells more than 6 months.Our study established an acquired gefitinib-resistant cell line, which exhibited epithelial-mesenchymal transition (EMT) and stem cell-like properties ann transcriptional sequencing and bioinformatics analysis confirmed that.

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Gene expression induced by 5SA-Atoh1 in DLD1 cells

Project description:To investigate the function of Atoh1 in colon cancer cells. We have employed whole genome microarray expression profiling as a discovery platform to iedntify the gene expression induced by Atoh1 in colon cancer cells. Mutated Atoh1 (5SA-Atoh1) replaced 5 serine residues to Alanin for the protein stabilization were expressed in human colon cancer cellline; DLD1 cells. Triplicated RNAs were generated from GFP expressing DLD1 cells and 5SA-Atoh1 expressing DLD1 cell, respectively.

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Project description:Phosphatidylinositol (3,4,5)-trisphosphate (PI(3,4,5)P3) is a lipid second messenger produced by class I phosphoinositide 3-kinases (PI 3-kinases) phosphorylation of phosphatidylinositol (4,5)-bisphosphate (PI(4,5)P2). Although typically associated with the plasma membrane, it is now appreciated that PI(3,4,5)P3 generation also occurs in the nucleus to regulate a variety of biological functions. Using a PI(3,4,5)P3-specific GST-GRP1PH domain reporter and immunofluorescence microscopy, we have found that DLD1 and SW480 colorectal cancer (CRC) cells exhibit pronounced nuclear staining of PI(3,4,5)P3. To characterise the nuclear PI(3,4,5)P3 interactome in DLD1 and SW480 cells, we performed affinity pull-down experiments on nuclear extracts using a ω-amino analogue of phosphatidylinositol 3,4,5 -triphosphate (PI(3,4,5)P3 immobilised onto Affi-gel10 beads. Gel fractionation and LC/MS-MS analysis was performed to reduce sample complexity and increase resolution, with samples run on a LTQ Orbitrap Elite mass spectrometer. DLD1 and SW480 cells were both analysed in four independent biological replicates. A protein was considered a member of the nuclear PI(3,4,5)P3 interactome if it was identified in at least two experiments (with at least two peptides, FDR of 1%) in both cell lines, yielding a total of 1237 unique proteins (representing 1103 genes for DLD1 and 1001 genes for SW480 cells).

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