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Systems-wide RNAi analysis of different chr13 genes in colorectal cancer cell line (SW480)

ABSTRACT: Expression profiles were generated for eight genes located on chromosome 13 following RNAi to enable the determination of gene specific LOF RNAi signatures in the colorectal cancer cell line SW480.

ORGANISM(S): Homo sapiens

PROVIDER: GSE33824 | GEO | 2013/04/05

SECONDARY ACCESSION(S): PRJNA148193

REPOSITORIES: GEO

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Systems-wide RNAi analysis of different chr13 genes in colorectal cancer cell line (SW480)

Project description:Expression profiles were generated for eight genes located on chromosome 13 following RNAi to enable the determination of gene specific LOF RNAi signatures in the colorectal cancer cell line SW480. Triplicate transfections of SW480 cells were performed using two different siRNA duplexes corresponding to each gene target in 6-well plates using the same protocol scaled 30-fold. RNA was purified 72 hrs after transfection. RNA was also purified from negative control siRNA-transfected cells (AllStar siNegative (siNEG), Qiagen). Reduction in target mRNA levels was confirmed by real-time PCR prior to the array analysis.

2013-04-05 | E-GEOD-33824 | biostudies-arrayexpress

Ezrin knockdown in SW480

Project description:Analysis of SW480 cells following knockdown of Ezrin using RNAi. Ezrin is a protein that regulate the organization of cytoskeleton. Ezrin KD SW480 was used to study the role of ezrin in colon cancer. Keywords: ezrin, colon cancer, migration

2008-04-29 | GSE11279 | GEO

SLC25A25-AS1 knockdown data of two colorectal carcinoma cell lines (HT29 and SW480)

Project description:We identified that SLC25A25-AS1 was a lncRNA influencing radiation response. Therefore, we aimed to explore more biological roles of SLC25A25-AS1 in this process. Towards this end, we used RNA interference (RNAi)-mediated knockdown of SLC25A25-AS1 in HT29 and SW480 to explore the changes of mRNA expression profiles and explore the phenotype outcomes.

2017-03-03 | GSE95605 | GEO

Expression analysis of colorectal cancer cell line SW480 expressing FOXC2

Project description:Investigation of whole genome gene expression level changes in a colorectal cancer cell line SW480 expressing FOXC2, compared to the pBabe control cells. Genes associated with metastasis regulated by FOXC2 in colorectal cancer were analysed. The role of FOXC2 in breast cancer metastasis are further described in Mani SA, Yang J et al. Mesenchyme Forkhead 1 (FOXC2) plays a key role in metastasis and is associated with aggressive basal-like breast cancers. PNAS 2007; 104: 10069-10074 . A six chip study using total RNA recovered from three separate cultures of SW480/pBabe and three separate cultures of SW480/FOXC2. Each chip measures the expression level of 45033 genes from SW480/pBabe or SW480/FOXC2.

2014-07-02 | E-GEOD-58980 | biostudies-arrayexpress

RNA-seq of ITPR3 knockout in SW480 colorectal cancer metastases

Project description:Here we analyze the transcriptional profiles of liver metastases formed by sgCtrl versus sgITPR3 SW480 colorectal cancer cells. We find downregulated genes in sgITPR3 SW480 metastases to be enriched for pathways related to immune response and non-canonical NFkB signaling.

2022-08-17 | GSE182257 | GEO

Microvesicular mRNA profiling of SW480 human colorectal adenocarcinoma cells

Project description:We analyzed mRNA profile of SW480-derived microvesicles using microarray Keywords: Microvesicular mRNA profiling

2009-12-03 | GSE9589 | GEO

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

2016-08-01 | GSE72412 | GEO

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.

2016-08-01 | E-GEOD-72412 | biostudies-arrayexpress

RNAi profiling by array of SW840 cells after Ezrin knockdown

2008-06-11 | E-GEOD-11279 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Quantitative Analysis of SW480 cells and HPSE-knockdown SW480 cells Transcriptomes

Project description:Heparanase (HPSE), the only known mammalian endoglycosidase responsible for heparan sulfate cleavage, is a multi-faceted protein affecting multiple malignant behaviors in cancer cells. The goals of this study are to compare the mRNA transcriptome differences between SW480 cells and HPSE-knockdown SW480 cells. Methods: mRNA profiles of SW480 cells and HPSE-knockdown SW480 cells were generated by deep sequencing, in triplicate, using Illumina.

2019-02-14 | GSE126504 | GEO

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