Download Molecular Profiles Of Breast Cancer Progression

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Transcript
Molecular
Profiles
Of
Breast
Cancer
Progression
Gabriela Alexe
IBM Computational Biology Center, IBM T.J. Watson Research Center, Yorktown
Heights, NY 10598, USA. Email: galexe@us.ibm.com
We develop a new robust technique to analyze microarray data
which uses a combination of principal components analysis and consensus ensemble kclustering to find robust clusters and gene markers in the data.
We apply our method to a public microarray breast cancer dataset from Ma et al. (2003)
which has expression levels of genes in normal samples as well as in three pathological
stages of disease; namely, atypical ductal hyperplasia or ADH, ductal carcinoma in situ
or DCIS and invasive ductal carcinoma or IDC. Our method averages over clustering
techniques and data perturbation to find stable, robust clusters and gene markers. A major
result of our analysis is that different sets of patients seem to progress
to the same final phenotype along different functional pathways. Our findings are
validated on external gene expression microarray datasets.