GEO DataSets

(Submitter supplied) Isolation and enrichment of cancer stem cells in colorectal carcinoma to study role of epithelial-mesenchymal transition regilators in tumor malignancy.

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS4511 GDS4596

Platform:

GPL570

8 Samples

Download data: CEL, CHP

Analysis of SW480 CRC cells stably overexpressing Snail, an EMT activator highly expressed in CRC colonospheres. SW480-Snail cells display most properties of colonospheres, including cell dedifferentiation. Results provide insight into molecular mechanisms underlying EMT-related malignancy.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 genotype/variation sets

Platform:

GPL570

Series:

GSE14773

4 Samples

Download data: CEL, CHP

Analysis of colonospheres from primary colorectal cancer (CRC) cell line HT29. Results provide insight into potential regulators governing stemness and malignancy traits in CRC colonospheres

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 cell line sets

Platform:

GPL570

Series:

GSE14773

4 Samples

Download data: CEL, CHP

(Submitter supplied) Metastatic human colon carcinoma cell lines LS411N and SW620 were cultured in the presence of increased concentration of 5-FU. The selected stable cell lines (LS411N-5FU-R and SW620-5FU-R) are CD133+ that are resistant to 5-FU. However, FACS-sorted CD133+ cells from LS411N and SW620 are not resistant to 5-FU, suggesting that only a subset of CD133+ cells are 5-FU-resistant colon cancer stem cells. A global gene expression profiling was performed to identify differentiated expressed genes between LS411N-CD133+ cells and LS411N-5FU-R, and between SW620-CD133+ and SW620-5FU-R cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16686

8 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Primates

Type:

Non-coding RNA profiling by array; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL570 GPL15753 GPL9115

9 Samples

Download data: CEL, GPR, TXT

(Submitter supplied) Colorectal carcinoma (CRC) is one of the most common cancers worldwide. Re-evaluating our current knowledge on CRC and developing novel therapeutic strategies is still crucial. Accumulating evidence suggests that cancer cells possess characters reminiscent of those of normal stem cells. Unveiling small RNAs responsible for cell stemness and chemoradioresistance should eventually lead to the development of novel therapeutic approaches.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL9115

4 Samples

Download data: TXT

(Submitter supplied) The transcription factor Snail is known as an EMT regulator to promote cancer metastasis. Identification Snail-regulated miRNAs helps to uncover mechanisms governing CRC metastasis

Organism:

Homo sapiens; Primates

Type:

Non-coding RNA profiling by array

Platform:

GPL15753

2 Samples

Download data: GPR

(Submitter supplied) miRNAs exert various biological functions by targeting different cellular targets. Studying miR-146a functions in colon cancer cells helps to understand colorectal cancer (CRC) malignancy and progression.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

3 Samples

Download data: CEL

(Submitter supplied) A microarray approach was used to measure and compare whole genome expression in non-sorted cell population and in subsets of cultured cells, including stem-like cancer cell and non-stem like cancer cell populations,

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

12 Samples

Download data: TXT

(Submitter supplied) Cancer metastasis remains an important unsolved problem. Matrix metalloproteinases (MMPs) have been shown to promote cancer cell transformation, migration, invasion, and metastasis through alteration of the extracellular microenvironment, and alter intracellular signaling and genome status. In addition, recent studies have shown intracellular and intranuclear localization, as well as roles of MMPs. In the present study, we examined gene expression signatures of high- and low-metastatic mouse colon cancer cells, and found that Mmp3 was expressed at the highest level in the high-metastatic cells. Profound nuclear localization of Mmps was found in primary explant sites as well as in areas of metastasis in lungs. In addition to the native 50-kDa Mmp3, a short 25-kDa PEX domain and active Mmp3 dimer were found in metastatic cancer cells, indicating novel roles for these forms. Knockdown of Mmp3 attenuated cancer cell viability, migration, and invasion in vitro, along with metastasis in an in vivo transplantation model, as well as cancer cell migration and invasion. These findings suggest that MMPs including intracellular, short, and dimerized forms are involved with malignant progression of cancer, thus they may be suitable as biomarkers and therapeutic targets.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL21810

3 Samples

Download data: TXT

(Submitter supplied) Stable expression of SNAI1 in MCF10A cells enhanced resistance to cell death and cellular plasticity by regulating signalling pathways involved in apoptotis and stem cell maintenance.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

6 Samples

Download data: CEL, CHP

(Submitter supplied) We used Affymetrix HG U133 Plus 2.0 GeneChips to compare the transcriptome of Caco-2 cells transfected with SDC1-siRNA against negative control siRNA-transfected cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

6 Samples

Download data: CEL

(Submitter supplied) The prognosis of pancreatic cancer is still poor due to resistance to conventional therapies, and cancer stem cells (CSCs) targeted therapy is expected to be a promising therapy. Although epithelial mesenchymal transition-inducing transcription factors (EMT-TF) are known to impart the CSCs properties to some of solid tumors, it has not been clearly reported in pancreatic cancer yet. Zinc finger protein SNAI2, a member of the Snail superfamily of EMT-TF, is frequently overexpressed in pancreatic cancer cells and the poor prognosis has been reported in cases with high SNAI2 expression. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL20844

4 Samples

Download data: TXT

(Submitter supplied) The prognosis of pancreatic cancer is still poor due to resistance to conventional therapies, and cancer stem cells (CSCs) targeted therapy is expected to be a promising therapy. Although epithelial mesenchymal transition-inducing transcription factors (EMT-TF) are known to impart the CSCs properties to some of solid tumors, it has not been clearly reported in pancreatic cancer yet. Zinc finger protein SNAI2, a member of the Snail superfamily of EMT-TF, is frequently overexpressed in pancreatic cancer cells and the poor prognosis has been reported in cases with high SNAI2 expression. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL20844

4 Samples

Download data: TXT

(Submitter supplied) At the molecular level, epithelial-to-mesenchymal transition (EMT) necessitates extensive transcriptional reprogramming which is orchestrated by a small group of gene regulatory proteins. The transcription factor SNAIL1 is a zinc-finger DNA-binding protein and well-known master regulator of EMT. However, knowledge of its immediate target genes is incomplete. Here, we performed ChIP-seq to chart genome-wide SNAIL1 chromosomal binding sites and to identify genes directly regulated by SNAIL1. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

4 Samples

Download data: NARROWPEAK

(Submitter supplied) Colorectal cancer (CRC) has the third highest incidence and mortality rates among the US population. According to the most recent concept of carcinogenesis, human tumors are organized hierarchically, and the top of this hierarchy is occupied by malignant stem cells, or cancer stem cells (CSCs), which possess unlimited self-renewal and tumor-initiating capacities and high resistance to conventional anticancer therapies. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

4 Samples

Download data: TXT

(Submitter supplied) The majority of meningiomas are benign tumors associated with favorable outcomes; however, the less common aggressive variants with unfavorable outcomes often recur and may be due to sub-populations of less-differentiated cells residing within the tumor. These sub-populations of tumor cells, termed tumor-initiating cells, may be isolated from heterogeneous tumors when sorted or cultured in defined medium designed for enrichment of the tumor-initiating cells. more...

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array; Expression profiling by array

Platforms:

GPL6947 GPL6804

6 Samples

Download data: CEL, CHP, TXT

(Submitter supplied) Two engineered HMLE cell lines representing various degrees of EMT were treated with a drug in development to target and inhibit SNAIL interaction with PTP53, called GN-25 total RNA was isolated and analyzed in an Agilent two-color experiment. Four biological replicates of each condition were directly compared, GN25 treated compared to untreated reference

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13497

8 Samples

Download data: TXT

(Submitter supplied) Chemoresistance in cancer is linked to a subset of cancer cells termed “cancer stem cells” (CSCs), and in particular, those expressing the CD44 variant appear to represent a more aggressive disease phenotype. Herein, we demonstrate that CD44v6 represents a CSC population with increased resistance to chemotherapeutic agents, and its high expression is frequently associated with poor overall survival (OS) (HR:3.04; CI:1.35–6.85; p<0.001) and disease-free survival (DFS) (HR:5.30, CI:1.64–17.12, p<0.01) in CRC patients. more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16791

8 Samples

Download data: TXT

(Submitter supplied) Although the anti-cancer properties of Oligomeric Proanthocyanidins (OPCs) from grape seeds has been well recognized, the molecular mechanisms by which they exert anti-cancer effects are poorly understood. In this study, through comprehensive RNA-sequencing based gene-expression profiling in multiple colorectal cancer cell lines, we for the first time illuminate the genome-wide effects of OPCs from grape seeds in colorectal cancer. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

30 Samples

Download data: CSV