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Transcriptome profiling of SUM159 and derivatives with different metastasis capability

ABSTRACT: Transcriptome profiling of SUM159 and derivatives with different metastasis capability

PROVIDER: PRJNA635112 | ENA |

REPOSITORIES: ENA

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Transcriptome profiling of SUM159 and derivatives with different metastasis capability

Project description:Triple negative breast cancer cell line SUM159 labeled with triple reporter (TR, TK-GFP-fLUC) injected into Nude mice via mammary fat pad and tail vein injection. Tumor progression is monitored by in vivo bioluminescent imaging. Tumors from mammary and lung were isolated and cultured. These derivatives cells are further tested for their capability to develop mammary primary tumor and metastasis in lung and bone in mice. The total RNA samples are extracted from the panel of SUM159 and derivatives and the transcriptome profiles are determined by microarray. The correlation of transcriptome of the cells to metastasis capability indicated candidate genes and regulatory pathways of metastasis of TNBC.

2021-01-13 | GSE151198 | GEO

Comparison of metastatic derivatives of colon cancer cell line selected in vivo

Project description:Using a human colorectal cancer cell line we incremented its metastatic capacity in a mouse model of liver and lung metastasis. Afterwards, a comparison between the different metastatic derivatives is done. Metastatic derivatives were selected by the use of a balb/c nude mouse model. Once the metastasis appeared, the cells were extracted and expanded in culture. Thereafter RNA was extracted and hybridized

2014-04-22 | E-GEOD-33350 | biostudies-arrayexpress

Comparison of metastatic derivatives of colon cancer cell line selected in vivo

2014-04-22 | GSE33350 | GEO

DNA methylation profiling of four DLD1 colorectal cancer cell derivatives that recapitulate EMT/MET transitions during metastasis.

Project description:DNA methylation profiling of four DLD1 colorectal cancer cell derivatives that recapitulate EMT/MET transitions during metastasis. The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 450,000 CpGs.

2017-03-28 | GSE85529 | GEO

Spinophilin silencing in the breast cancer cell line SUM159

Project description:Microarray profiling was used to determine the most abundantly expressed genes in spinophilin-silenced breast cancer cells compared to control cells in the cell line SUM159. We identified several differentially expressed genes in spinophilin-silenced cells. A total number of six samples were analyzed, each in three replicates. There are three SUM159 Control samples and three samples of the cell line SUM159 with silenced spinophilin.

2014-10-01 | E-GEOD-61889 | biostudies-arrayexpress

SUM159 BrCa Decitabine Gene Expression

Project description:SUM159 BrCa Decitabine Gene Expression

| PRJNA553252 | ENA

RNA-Seq analysis of SUM159 DAPK3 knockout (KO) cells and control cells

Project description:We conducted RNA sequencing of SUM159 DAPK3 KO and control cells followed by Gene Set Enrichment Analysis (GSEA) to identify altered gene expression pathways by DAPK3 knockout. Epithelial-mesenchymal transition (EMT) pathway was the top significantly down-regulated pathway in SUM159 DAPK3 KO cells as compared to control cells.

2024-10-10 | GSE273142 | GEO

Gene expression profiling of transmitochondrial cybrids (triple negative breast cancer cells in SUM159 background)

Project description:We used a transmitochondrial cybrid (cybrids)-based discovery approach to identify mitochondria-regulated cancer pathways in TN BCa. Cybrids were generated under a moderately metastatic TN BCa cell line SUM159 as the common nuclear background with mitochondria from benign breast epithelium (A1N4) and moderately metastatic (SUM159) TN BCa cells. In vitro and in vivo studies suggested that even under the common moderately cancerous nuclear background, mitochondria from benign cells inhibit and metastatic cell induce cancer properties of a moderately aggressive TN BCa cell. Gene expression studies identified c-Src onco-pathway as one of the major cancer pathways altered according to the mitochondria status of the cybrids. SUM159 Ï0 cells were used as nuclear donor and A1N4 and SUM 159 cells were used as mitochondrial donor cells. The two groups were profiled for gene expression using microarrays. two group comparison (159/SUM159 vs A1/SUM159)

2016-04-14 | E-GEOD-72319 | biostudies-arrayexpress

Expression data from TGFBR3 controls and TGFBR3 knockdown of SUM159 3D cultures

Project description:The objective of this experiment was to determine global gene expression change in triple negative cell line upon knockdown of TGFBR3. Genotype specific differences in expression profiles have been evaluated using human HuGene1.0-ST affymetrix array. RNA was extracted from SUM159 controls and SUM159 TGFBR3KD cells cultured in 3-dimensional in vitro system.

2014-02-06 | GSE54756 | GEO

Effect of targeting NOS2 on gene expression of triple-negative breast cancer (metaplastic) SUM159 cell lines

Project description:To investigate the role of iNOS in tumor cell morphology and gene expression, we utilized CRISPR-Cas9 gene editing (NOS2 Double Nickase Plasmid, Santa Cruz) to knockout NOS2 in SUM159 cells. After puromycin selection, resistant clones were selected by immunoblotting for iNOS expression and nitrite/nitrate colorimetric assay. We then performed gene expression profiling analysis using data obtained from RNA-seq of parental SUM159 cells compared to NOS2KO SUM159 cells.

2024-05-28 | GSE234512 | GEO

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