Gul S. Dalgin

TL;DR: An alternative approach that first separates the HER2+ tumors using a gene amplification signal for Her2/neu amplicon genes and then applies consensus ensemble clustering separately to the Her2+ and HER2- clusters to look for further substructure is proposed.

TL;DR: The detection of hypermethylation in these highly down-regulated genes suggests that assaying for their methylation using cells from urine or blood could provide the basis for a viable diagnostic test.

TL;DR: In this article, a method based on principal component analysis and ensemble consensus clustering was proposed to identify an optimum set of genes and divide the samples into stable clusters which correlate with clinical classification into Luminal, Basal-like and Her2+ subtypes.

TL;DR: A new technique to analyse microarray data which uses a combination of principal components analysis and consensus ensemble k-clustering to find robust clusters and gene markers in the data to confirm that the cancer phenotype develops early and that each subtype progresses along its own specific pathway, as if each was a distinct disease.

TL;DR: 158 biomarkers appear to be associated with the central alterations known to be required for cancer transformation, including the oncogenes JAZF1, AXL, ABL2; tumor suppressors RASD1, PTPRO, TFAP2A, CDKN1C; and genes involved in proteolysis or cell-adhesion such as WASF2, and PAPPA.