Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 43
Release date: Aug 10 2012
Last update date: Jan 12 2017
Access: Public
Diseases: Breast Neoplasms, Neoplasms
Chemicals: Phenobarbital
Dataset link Targeting PyMT oncogene to diverse mammary cell populations enhances tumor heterogeneity and generates rare breast cancer subtypes

Experimental Protocol


43 total microarrays were generated from lentiviral-PyMT tumors, MMTV-PyMT transgenic tumors, and embryonic samples . Nine samples were two color arrays run at UNC microarray facility, while 34 were one color arrays run at Huntsman Cancer Instutite. The two color arrays were treated as one color arrays, we used the Cy5 intensity data for analysis. These data were merged and normalized (quantile and combat) with previously published arrays from UNC. Data were filtered on an intrinsic gene set developed in 2007 (Herschkowitz, J.I. et al. Genome Biology, 2007) and clustered using euclidian distance metrics This GEO submission consists of the 34 one color arrays run at Huntsman Cancer Instutite. The nine two color arrays run at UNC microarray facility are not included.

Repositories


GEO

GSE40001

ArrayExpress

E-GEOD-40001

BioProject

PRJNA172249

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Contact


Bryan Welm