GEO DataSets

(Submitter supplied) Full title: Comprehensive Characterization of Three-Dimensional Models for Prostate Cancer Growth and Invasion in Laminin-rich Extracellular Matrix Prostate Cancer (PrCa) cells undergo acinar morphogenesis and spheroid formation in three-dimensional (3D) culture, supported by laminin-rich extracellular matrix (lrECM, Matrigel). We developed miniaturized 3D model systems that facilitate investigation of morphogenesis and invasion of normal and PrCa cell lines in lrECM. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6883

54 Samples

Download data: TXT

(Submitter supplied) Comparison of gene expression data between cell lines grown on 2D tissue culture plastic or 3D matrigel A427, A549, H23, H358, H460, H661, H1437, and H1703 cells were compared

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

16 Samples

Download data: CEL

(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) Background: Fallopian tube secretory epithelial cells (FTSECs) have been implicated as a cell-of-origin for high-grade serous epithelial ovarian cancer. However, there are relatively few in vitro models of this tissue type available for use in studies of FTSEC biology and malignant transformation. In vitro three-dimensional (3D) cell culture models aim to recreate the architecture and geometry of tissues in vivo and restore the complex network of cell-cell/cell-matrix interactions that occur throughout the surface of the cell membrane. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS5227

Platform:

GPL10558

18 Samples

Download data: TXT

Analysis of fallopian tube secretory epithelial cells (FTSECs) cultured in 2D or in 3D on polyHEMA coated plates. FTSECs have been implicated as a cell-of-origin for high-grade epithelial ovarian cancer. Results provide insight into molecular mechanisms underlying epithelial ovarovarian cancer.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 growth protocol, 3 individual sets

Platform:

GPL10558

Series:

GSE51220

18 Samples

Download data

(Submitter supplied) MYCN amplification and overexpression are common in neuroendocrine prostate cancer (NEPC). However, the impact of aberrant N-Myc expression in prostate tumorigenesis and the cellular origin of NEPC have not been established. We define N-Myc and activated AKT1 as oncogenic components sufficient to transform human prostate epithelial cells to prostate adenocarcinoma and NEPC including the small cell prostate carcinoma (SCPC) variant with phenotypic and molecular features of aggressive, late-stage human disease. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

6 Samples

Download data: TXT

(Submitter supplied) MYCN amplification and overexpression are common in neuroendocrine prostate cancer (NEPC). However, the impact of aberrant N-Myc expression in prostate tumorigenesis and the cellular origin of NEPC have not been established. We define N-Myc and activated AKT1 as oncogenic components sufficient to transform human prostate epithelial cells to prostate adenocarcinoma and NEPC including the small cell prostate carcinoma (SCPC) variant with phenotypic and molecular features of aggressive, late-stage human disease. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array; Genome variation profiling by genome tiling array

Platform:

GPL16131

4 Samples

Download data: CEL, CYCHP

(Submitter supplied) We established chromate transformed cell lines by chronic exposure of normal human bronchial epithelial BEAS-2B cells to low doses of hexavalent chromium followed by anchorage-independent growth. The gene expression profiles were analyzed in the established cell lines. The gene expression profiles from six chromate transformed cell lines were remarkably similar to each other yet differed significantly from that of either control cell line or normal Beas-2B cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

10 Samples

Download data: CEL

(Submitter supplied) Analysis of LNCaP cell molecular differences and their response to R1881 in 2D and 3D cultures. Androgen regulated genes were differentially expressed between 2D and 3D cultures. These results provide insights into factors that influence the expression of androgen regulated genes

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14873

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) The traditional method for studying cancer in vitro is to grow immortalized cancer cells in two-dimensional (2D) monolayers on plastic. However, many cellular features are impaired in these unnatural conditions and big alterations in gene expression in comparison to tumors have been reported. Three-dimensional (3D) cell culture models have become increasingly popular and are suggested to be better models than 2D monolayers due to improved cell-to-cell contacts and structures that resemble in vivo architecture. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

12 Samples

Download data: TXT

(Submitter supplied) The traditional method for studying cancer in vitro is to grow immortalized cancer cells in two-dimensional (2D) monolayers on plastic. However, many cellular features are impaired in these unnatural conditions and big alterations in gene expression in comparison to tumors have been reported. Three-dimensional (3D) cell culture models have become increasingly popular and are suggested to be better models than 2D monolayers due to improved cell-to-cell contacts and structures that resemble in vivo architecture. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS5310

Platform:

GPL10558

12 Samples

Download data: TXT

Temporal analysis of JIMT1 breast cancer cells cultured as xenografts, in two dimensional cultures, in polyHEMA three dimensional cell cultures, and in Matrigel three dimensional cell cultures. Results provide insight into how closely the Matrigel 3D cell culture model mimics in vivo tumors.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 4 growth protocol, 3 time sets

Platform:

GPL10558

Series:

GSE42529

12 Samples

Download data

(Submitter supplied) Background: Prostate cancer is the second leading cause of cancer mortality among US men. Epidemiological evidence suggests that high vitamin D status protects men from prostate cancer and the active form of vitamin D, 1α,25 dihydroxyvitamin D3 (1,25(OH)2D) has anti-cancer effects in cultured prostate cells. Still, the molecular mechanisms and the gene targets for vitamin D-mediated prostate cancer prevention are unknown. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS3761

Platform:

GPL570

24 Samples

Download data: CEL

Analysis of RWPE1 cells, an immortalized, non-tumorigenic prostate epithelial cell line, treated with 1,25(OH)2D (i.e., the active form of vitamin D), for up to 48 hrs. RWPE1 cells are growth arrested by 1,25(OH)2D. Results provide insight into the role of vitamin D in prostate cancer prevention.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 agent, 3 time sets

Platform:

GPL570

Series:

GSE15947

24 Samples

Download data: CEL

(Submitter supplied) We stratified colorectal tumor samples using a new unsupervised, iterative method based on non-negative matrix factorization (NMF). The resulting five subtypes exhibited activation of specific signaling pathways, and significant differences in microsatellite status and tumor location. We could also align three CRC cell lines panels to these subtypes.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4379

Platform:

GPL570

62 Samples

Download data: CEL

Analysis of primary colorectal cancer (CRC) tumors. CRC is a heterogeneous disease. Results provide insight into stratifying CRC tumor samples into subtypes and tailoring treatments for the CRC subtypes.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 6 disease state, 3 genotype/variation, 5 other sets

Platform:

GPL570

Series:

GSE35896

62 Samples

Download data: CEL

(Submitter supplied) The crosstalk between tumor cells and the adjacent normal epithelium contributes to cancer progression, but its regulators have remained elusive. Here, we show that breast cancer cells maintained in hypoxia release small extracellular vesicles (sEV) that activate mitochondrial dynamics, stimulate mitochondrial movements and promote organelle accumulation at the cortical cytoskeleton in normal mammary epithelial cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

4 Samples

Download data: TXT

(Submitter supplied) The objective of this study was to make use of gene expression signatures and functional assays to delineate differences between various intestinal colon carcinoma cell lines and normal intestinal epithelium to assess their appropriateness as a tumor model or for drug absorption studies.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

43 Samples

Download data: CEL

(Submitter supplied) Refined cancer models are required to assess the burgeoning number of potential targets for cancer therapeutics within a rapid and clinically relevant context. Here we utilize tumor-associated genetic pathways to transform primary human epithelial cells from epidermis, oropharynx, esophagus, and cervix into genetically defined tumors within an entirely human 3-dimensional (3-D) tissue environment incorporating cell-populated stroma and intact basement membrane (BM). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

18 Samples

Download data: CEL