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Wnt signaling inhibition in human colon cancer cell lines (SW480 and SW620) drives changes in gene programs for cell adhesion, mobility, and cell junction

ABSTRACT: Wnt signaling inhibition in human colon cancer cell lines (SW480 and SW620) drives changes in gene programs for cell adhesion, mobility, and cell junction

PROVIDER: PRJNA545421 | ENA |

REPOSITORIES: ENA

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Wnt signaling inhibition in human colon cancer cell lines (SW480 and SW620) drives changes in gene programs for cell adhesion, mobility, and cell junction

Project description:Overactive Wnt signaling has been found to be a significant driver in colon cancer carcinogenesis targeting many cellular processes such as cel proliferation, migration, and metabolism. The purpose of this study was to use high throughput transcriptional profiling (RNA-seq) to identify Wnt signaling gene targets in human colon cancer cells. Transcriptional profiles of human colon cancer cell lines (SW480 and SW620) with overactive Wnt signaling were compared to their matching Wnt low genetically modified stable cell (SW480-dnLEF1 and SW620-dnLEF1) through high throughput RNA-seq with four biological replicates. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat2 followed by HTseq and DESEQ2. Using an optimized data analysis workflow, we mapped about 30-40 million sequence reads per sample to the human genome (build hg38). RNAseq analysis of dnLEF1 expression in SW480 and SW620 cells cultured in vitro showed changes in gene programs for cell adhesion, mobility, cell junction, and extracellular matrix.

2020-05-31 | GSE131948 | GEO

MicroRNA expression profile between human colorectal cancer SW480 and SW620 cell line

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MicroRNA expression profile between human colorectal cancer SW480 and SW620 cell line

Project description:Two isogenic human colorectal cancer cell lines (primary SW480 cell line and its lymph node metastatic variant SW620 cell line),as an in vitro metastatic model. We have demonstrated that SW620 cell line possesses high metastasis potential and SW480 cell linepossesses low metastatic potential. We want to compare the whole cell microRNAs profiles of two isogenic colorectal cancer cell lines (SW480 and SW620 cell line), to gain an insight into the molecular events of colon cancer metastasis.

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Ribosome-bound lncRNAs between SW620 and SW480

Project description:The differential ribosome-bound lncRNAs between SW620 and SW480 were investigated by RNA-seq.

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Bulk Transcriptome Profiling of SW480 and SW620 tumors from zebrafish xenografts

Project description:Buk transcriptome profiling of SW480 and SW620 tumors dissected from zebrafish xenografts at 2dpi.

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TET2 binding protein of human colon cancer cell SW480-SW620

Project description:This project was aimed to identify proteins interatcted with TET2 and the differences between SW480 and SW620.

2023-10-24 | PXD020080 | Pride

24h time-course microarray study of SW480 and SW620 cells

Project description:A 24h time-course array study was performed to analyse the different circadian phenotypes of SW480 and SW620 cells, a cell line from a primary tumor and a metastatic cell line from the same patient. Samples were taken every three hours for a period of 24h so that 9 time-points could be analysed for each cell line.

2018-07-23 | E-MTAB-5876 | biostudies-arrayexpress

Identification of differentially expressed genes between SW480 and SW620 spheroid cultures [mRNA]

Project description:The colorectal cancer (CRC) cell line pair SW480/SW620 is an accepted model to study CRC progression and metastasis formation. Studying gene expression differences might allow to uncover molecular mechanisms that underlie metastasis initiation Both cell lines are derived from the same patient, but at different stages of the disease. They might show differences in tumor-initiating cell (TIC) potential.

2018-04-12 | GSE89523 | GEO

Identification of differentially expressed miRNAs between SW480 and SW620 spheroid cultures [miRNA]

Project description:The colorectal cancer (CRC) cell line pair SW480/SW620 is an accepted model to study CRC progression and metastasis formation. Studying miRNA expression differences might allow to uncover molecular mechanisms that underlie metastasis initiation Both cell lines are derived from the same patient, but at different stages of the disease. They might show differences in tumor-initiating cell (TIC) potential.

2018-04-12 | GSE89522 | GEO

Ribosome-bound lncRNAs between SW620 and SW480

Project description:Ribosome-bound lncRNAs between SW620 and SW480

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