Dataset features

Specifications


Application: SNP array data analysis, aCGH data analysis
Number of samples: 151
Release date: Nov 2 2007
Last update date: Dec 22 2017
Access: Public
Diseases: Melanoma, Neoplasms
Dataset link A comparison of DNA copy number profiling platforms using a panel of melanoma cell lines

Experimental Protocol


We generated copy number profiles of a defined set of tumor cell lines on five oligo-microarray-based assays of three platforms (Agilent, Affymetrix and NimbleGen) and determined the reproducibility, signal and noise as well as sensitivity and specificity of each in detecting two-fold signals based on SKY-defined aberrations as ground-truth for comparison. In addition, high-density microarray assays from Agilent and Affymetrix platforms were further compared for definition of CNAs in an independent dataset using published analytical approaches. All arrays were run from the same DNA harvest from respective cell lines. Each array was run according to the protocol of the manufacturer.

Repositories


GEO

GSE7822

ArrayExpress

E-GEOD-7822

BioProject

PRJNA100055

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