GEO series

Impact of ectopic expression of SNAIL2, ZEB2, ZEB1 or TWIST1 on BRAF-target genes in the murine melanocytic melan-a cell line

GSE39030 Mus musculus (mouse) Expression microarray 6 samples Submitted 2013/10/29 Platform GPL1261

At a glance

Expression microarray · mouse · 6 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Mus musculus (mouse)
Samples: 6 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

We have demonstrated that the oncogenic activation of B-RAF (using a truncated delta-BRAF-ER version inducible with tamoxifen) in the melan-a melanocyte cell line triggers the activation of Zeb1 and Twist1 at the expanse of Zeb2 and Snail2. Enforced maintenance of Zeb2 or Snail2 expression reduces the B-RAF oncogenic potential while ectopic expression of Zeb1 or Twist1 cooperates with B-RAF in melan-a cell transformation.

Read the full summary ↓

To get an insight into the properties of these embryonic transcription factors, gene expression profiles of melan-a-derived cell lines either expressing a non-activated B-RAF (- tamoxifen) or an activated BRAF (+ tamoxifen) alone or in combination with Snail2, Zeb2, Twist1 or Zeb1 have been established.

This dataset

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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 (GSE39030_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 PRJNA169873. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 24075834) ↗

Samples in this study

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+ 6 more — browse all 6 samples with per-sample file links →

Datasets on a similar topic

GSE60685 Genome-wide analysis of gene expression in normal and fibrotic mouse kidneys with and without Twist1 or with and without Snai1(Snail) expression in proximal tubular epithelial cells 37 samples shares twist1
GSE87472 The EMT-activator Zeb1 is crucial for cellular plasticity and drives metastasis in pancreatic cancer 36 samples shares zeb1
GSE269192 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program 493 samples shares zeb2
GSE269188 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program [KO_screen] 331 samples shares zeb2
GSE269191 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program [in vivo] 145 samples shares zeb2
GSE291909 Twist1 Overexpression Models an Aggressive Subtype of Pancreatic Ductal Adenocarcinoma in vivo 25 samples shares twist1
GSE283975 cMaf supports Zeb2 expression for primitive hematopoiesis (TRM RNA-seq) 24 samples shares zeb2
GSE224595 The role of endothelial Zeb2 in the progression of non-alcoholic fatty liver disease 23 samples shares zeb2

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