Exploratory analysis of cancer SAGE data

Ricardo Martinez (1) , Richard Christen (2) , Claude R. Pasquier (2) , Nicolas Pasquier (1)

1 I3S - Laboratoire d'Informatique, Signaux, et Systèmes de Sophia Antipolis
2 IBDC - Institut de signalisation, biologie du développement et cancer - Institute of Developmental Biology and Cancer

Using several analyse techniques for the hierarchical clustering of a SAGE expression dataset of 822 tags from 74 tissue samples (normal and cancer) we show that cleaning the dataset (tags and experiments) is critical and that attribution of a tag to a gene is not easy. Comparison of cancers from various tissues is a difficult task as tissue samples cluster according to tissue origin and not as cancer or normal.

Domaines: Bio-informatique [q-bio.QM]; Bio-Informatique, Biologie Systémique [q-bio.QM]

Ricardo Martinez, Richard Christen, Claude R. Pasquier, Nicolas Pasquier. Exploratory analysis of cancer SAGE data. PKDD'2005 International Conference, Oct 2005, Porto, Portugal. 6 p. ⟨hal-00363020⟩