Use of biplots and partial least squares regression in microarray data analysis for assessing association between genes Involved in different biological pathways
Contributo in Atti di convegno
Data di Pubblicazione:
2011
Citazione:
Use of biplots and partial least squares regression in microarray data analysis for
assessing association between genes Involved
in different biological pathways / N. Bassani, F. Ambrogi, D. Coradini, E. Biganzoli (LECTURE NOTES IN COMPUTER SCIENCE). - In: Computational
intelligence methods
for bioinformatics
and biostatistics : 7. International meeting, CIBB 2010
Palermo, Italy, September 16-18, 2010 / [a cura di] R. Rizzo, P. J.G. Lisboa. - Heidelberg : Springer, 2011. - ISBN 9783642219450. - pp. 123-134 (( Intervento presentato al 7. convegno International
meeting on Computational intelligence methods for bioinformatics and biostatistics (CIBB) tenutosi a Palermo nel 2010 [10.1007/978-3-642-21946-7_10].
Abstract:
Microarrays are widely used to study expression profiles for thousand of transcripts simultaneously and to explore inter-relationships between sets of genes. Visualization techniques and Partial Least Squares (PLS) regression have thus gained relevance in genomic. Biplots provide an aid to understand relationships between genes and samples and among genes, whereas passive projections of variables are helpful for understanding conditional relationships between sets of genes to be quantitatively evaluated via PLS regression. 62 genes involved in loss of cell polarity and 8 involved in Epithelial-Mesenchymal Transition (EMT), were selected from a study on 49 mesothelioma samples, and analysis considered EMT genes as conditioning and polarity genes as conditioned variables. PLS regression results are consistent with the PCA-based biplot of EMT genes and with passive projections of polarity genes. Future work will address sparsity in PCA and PLS regression. PLS path modeling will be considered after specification of a detailed dependency network.
Tipologia IRIS:
03 - Contributo in volume
Elenco autori:
N. Bassani, F. Ambrogi, D. Coradini, E. Biganzoli
Link alla scheda completa:
Titolo del libro:
Computational
intelligence methods
for bioinformatics
and biostatistics : 7. International meeting, CIBB 2010
Palermo, Italy, September 16-18, 2010
intelligence methods
for bioinformatics
and biostatistics : 7. International meeting, CIBB 2010
Palermo, Italy, September 16-18, 2010