GEO DataSets

(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) 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) Summary: Melanoma spheroids grown under neural crest cell conditions are highly plastic migratory/invasive tumor cells endowed with immunomodulator function Background: The aggressiveness of melanoma tumors is likely to rely on their well-recognized heterogeneity and plasticity. Melanoma comprises multi subpopulations of cancer cells some of which may possess stem cell-like properties supporting the notion of plasticity. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5175

12 Samples

Download data: CEL

(Submitter supplied) Transcription profile of cancer stem cells isolated from human non-small cells lung cancer (NSCLC) H460 cells. The profile of H460 cells that were made resistant to cisplatin after a single treatment with the drug was also determined. Both profiles were finally compared.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

8 Samples

Download data: TXT

(Submitter supplied) Cancer Stem Cells derived from human non-small cells lung cancer (NSCLC) H460 cells were differentiated by culturing them in the presence of Foetal Bovine Serum under adherent conditions. Changes in gene expression profiles were determined at 3, 9 and 24 hours of differentiation

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS5410

Platform:

GPL4133

8 Samples

Download data: GPR

Analysis of cancer stem cells (CSCs) isolated from non-small cell lung cancer cell line H460 and allowed to redifferentiate under adherent conditions in serum-containing media for up to 24hr. Results provide insight into molecular mechanisms underlying the differentiation of H460-derived CSCs.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 growth protocol, 4 time sets

Platform:

GPL4133

Series:

GSE54712

8 Samples

Download data: GPR

(Submitter supplied) Comparison of gene expression of different colon carcinoma cell lines under 2D and 3D culturing conditions

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14550

49 Samples

Download data: TXT

(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) Cancer stem cells (CSCs) represent a population of cells within the tumor able to drive tumorigenesis and known to be highly resistant to conventional chemotherapy and radiotherapy. In this work, we show a new role for ETV7, a transcriptional repressor member of the ETS family, in promoting breast cancer stem-like cells plasticity and resistance to chemo- and radiotherapy in breast cancer (BC) cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

12 Samples

Download data: TXT

(Submitter supplied) 2D culture as a model for drug testing often turns to be clinically futile. Therefore, 3D cultures (3Ds) show potential to better model responses to drugs observed in vivo. In preliminary studies, using melanoma (B16F10) and renal (RenCa) cancer, we confirmed that 3Ds better mimics the tumor microenvironment. Here, we evaluate how the proposed 3D mode of culture affects tumor cell susceptibility to anti-cancer drugs, which have distinct mechanisms of action (everolimus, doxorubicin, cisplatin). more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

4 Samples

Download data: TXT

(Submitter supplied) Despite an improved survival of myxoid liposarcoma (MLS) patients, existing therapies have shortcomings including therapy resistance. To study the characteristics of therapy resistance in MLS, we treated three MLS cell lines with the commonly used chemotherapy drug doxorubicin and compared their gene expression profiles with untreated control cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16686

6 Samples

Download data: CEL

(Submitter supplied) Cancer metastasis is a fetal problem that claims life of over 90% of cancer patients. It is hypothesized that cancer stem cells (CSCs) mediate cancer metastasis and such cells are often resistant to chemotherapy. Studying BRCA1 associated cancers, we found that CSCs form fillopodia and protrusions enriching for active forms of ezrin/radixin/moesin proteins and they have a much higher potential to metastasize than non-CSCs. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

6 Samples

Download data: CEL, CHP

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

80 Samples

Download data: TXT

(Submitter supplied) Two cell lines (HT55 and SW948) were found responsive to itraconazole treatment. To identify the mode of action cells were treated with itraconazole or control (DMSO) and then subjected to RNAseq analysis once the phenotype had developed

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

16 Samples

Download data: TXT

(Submitter supplied) Cellular dormancy and heterogeneous cell cycle lengths provide important explanations for treatment failure following adjuvant therapy with S-phase cytotoxics in colorectal cancer (CRC) yet the molecular control of the dormant versus cycling state remains unknown. In CRCs dormant cells are found to be highly clonogenic and resistant to chemotherapies. We sought to understand the molecular features of dormant CRC cells to facilitate rationale identification of compounds to target both dormant and cycling tumour cells.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

64 Samples

Download data: TXT

(Submitter supplied) We present TORNADO-seq —a high-throughput, a high-content drug discovery platform that for the first time uses next-generation sequencing (NGS) based, targeted RNA-seq in organoids monitoring the expression of 206 genes for the evaluation of complex mixtures of cellular phenotypes. TORNADO-seq is a fast, highly-reproducible, time- and cost-effective (5$ per sample including sequencing cost) method that we used to find drugs that enrich for differentiated cell phenotypes in intestinal organoids. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

1249 Samples

Download data: TXT

(Submitter supplied) Colorectal cancer (CRC) is a commonly occurring cancer worldwide. Metastasis and recurrence are the major causes of cancer-related death. CRC progression is a multistep process, and extensive efforts have been made to identify the genomic and transcriptomic alterations that occur during this process. However, whether primary tumors and metastatic lesions possess distinct biological features remains unclear. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17586

76 Samples

Download data: CEL, CHP

(Submitter supplied) Purpose: The goal of this study is to compare the retinal transcriptomes of wild-type and CTGF-/- mice during postnatal development of the retinal vasculature. Results: The results from principal component analysis (PCA) showed a distinguishable gene expression profiling among the samples. The expression level (FPKM value) of known genes and transcripts were calculated using ballgown through the transcript abundances estimated with StringTie. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

6 Samples

Download data: XLSX