Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 33
Release date: Dec 1 2017
Last update date: Aug 13 2018
Access: Public
Diseases: Melanoma
Dataset link Whole genome landscapes of major melanoma subtypes

Experimental Protocol


Expression arrays from 65 of the 183 tumours analysed were used to determine gene expression levels of genes with recurrent promoter and 3' and 5' UTR mutations. A total of 32 samples is available at GSE54467; the remaining 33 samples are submitted here. The 27 primary melanoma samples (AJCC stage II) were assayed using the HumanHT-12 v4 Expression BeadChip (Illumina® Inc., San Diego, CA, USA; Catalog IDs: BD-103-0204, BD-103-0604). The remaining 6 metastatic (AJCC stage IV) samples were assayed using the HumanWG-6 v3 Expression BeadChip ((Illumina® Inc., San Diego, CA, USA; Catalog IDs: BD-101-0203, BD-101-0603). NEQC normalisation (default parameters) was separately applied to each of the AJCC stage II and IV datasets (http://nar.oxfordjournals.org/content/38/22/e204). Probes for which there were no samples with a detection p-value of less than 0.01 were removed.

Repositories


GEO

GSE80435

BioProject

PRJNA318904

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Contact


Graham Mann