GEO series

Analysis of the effects of loss of E-cadherin and cell adhesion on human mammary epithelial cells

GSE9691 Homo sapiens (human) Expression microarray 12 samples Submitted 2008/01/15 Platform GPL3921

At a glance

Expression microarray · human · 12 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Homo sapiens (human)
Samples: 12 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

Loss of the epithelial adhesion molecule E-cadherin is thought to enable metastasis by disrupting intercellular contacts - an early step in metastatic dissemination. To further investigate the molecular basis of this notion, we use two methods to inhibit E-cadherin function that distinguish between E-cadherin's cell-cell adhesion and intracellular signaling functions.

Read the full summary ↓

While the disruption of cell-cell contacts alone does not enable metastasis, the loss of E-cadherin protein does, through induction of an epithelial-to-mesenchymal transition, invasiveness and anoikis-resistance. We find the E-cadherin binding partner beta-catenin to be necessary but not sufficient for induction of these phenotypes. In addition, gene expression analysis shows that E-cadherin loss results in the induction of multiple transcription factors, at least one of which, Twist, is necessary for E-cadherin loss-induced metastasis. These findings indicate that E-cadherin loss in tumors contributes to metastatic dissemination by inducing wide-ranging transcriptional and functional changes. Keywords: E-cadherin knockdown, dominant-negative E-cadherin expression, E-cadherin and Beta-catenin double knockdown

This dataset

Open GSE9691 in finder → Find more human microarray datasets →

Download · which file do I need?

Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE9691_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA103589. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 18483246) ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 12 more — browse all 12 samples with per-sample file links →

Datasets on a similar topic

GSE282654 Microenvironmental signals combine to induce non-additive molecular and phenotypic responses in mammary epithelial cells 27 samples shares epithelial, mammary
GSE281124 Loss of METTL3 potentiates transposable element expression and drives inflammation-induced cell plasticity in the mammary epithelium 24 samples shares mammary, loss
GSE4302 Genome-Wide Profiling of Airway Epithelial Cells in Asthmatics, Smokers and Healthy Controls 118 samples shares epithelial
GSE292059 Inflammatory Epithelial and Macrophage Pathways Underlie Residual Asthma Exacerbations in Urban Children Treated with Mepolizumab 965 samples shares epithelial
GSE336490 Comparative toxicogenomic profiling of human epithelial cell lines exposed to hazardous chemicals 120 samples shares epithelial
GSE328981 Quantum Molecular Resonance attenuates an oxidative stress-induced chimeric transcriptome program in human retinal pigment epithelial cells, preserving RNA structural fidelity 108 samples shares epithelial
GSE292971 Concerted epithelial and stromal changes during progression of Barrett’s Esophagus to invasive adenocarcinoma exposed by multi-scale, multi-omics analysis 107 samples shares epithelial
GSE201157 Expression profiling by high-throughput sequencing to evaluate effects of aroylated phenylenediamine HO53 on transcriptome in human undifferentiated bronchial epithelial cells (BCi-NS1.1 cell line). 12 samples shares epithelial

Search all human microarray datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.