Identification of Multiple Hypoxia Signatures in Neuroblastoma Cell Lines by l1-l2 Regularization and Data Reduction
Joint Authors
Barla, Annalisa
Verri, Alessandro
Fardin, Paolo
Rosasco, Lorenzo
Gambini, Claudio
Mosci, Sofia
Cornero, Andrea
Varesio, Luigi
Acquaviva, Massimo
Source
Journal of Biomedicine and Biotechnology
Issue
Vol. 2010, Issue 2010 (31 Dec. 2010), pp.1-11, 11 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2010-06-28
Country of Publication
Egypt
No. of Pages
11
Main Subjects
Abstract EN
Hypoxia is a condition of low oxygen tension occurring in the tumor and negatively correlated with the progression of the disease.
We studied the gene expression profiles of nine neuroblastoma cell lines grown under hypoxic conditions to define gene signatures that characterize hypoxic neuroblastoma.
The l1-l2 regularization applied to the entire transcriptome identified a single signature of 11 probesets discriminating the hypoxic state.
We demonstrate that new hypoxia signatures, with similar discriminatory power, can be generated by a prior knowledge-based filtering in which a much smaller number of probesets, characterizing hypoxia-related biochemical pathways, are analyzed.
l1-l2 regularization identified novel and robust hypoxia signatures within apoptosis, glycolysis, and oxidative phosphorylation Gene Ontology classes.
We conclude that the filtering approach overcomes the noisy nature of the microarray data and allows generating robust signatures suitable for biomarker discovery and patients risk assessment in a fraction of computer time.
American Psychological Association (APA)
Fardin, Paolo& Cornero, Andrea& Barla, Annalisa& Mosci, Sofia& Acquaviva, Massimo& Rosasco, Lorenzo…[et al.]. 2010. Identification of Multiple Hypoxia Signatures in Neuroblastoma Cell Lines by l1-l2 Regularization and Data Reduction. Journal of Biomedicine and Biotechnology،Vol. 2010, no. 2010, pp.1-11.
https://search.emarefa.net/detail/BIM-505588
Modern Language Association (MLA)
Fardin, Paolo…[et al.]. Identification of Multiple Hypoxia Signatures in Neuroblastoma Cell Lines by l1-l2 Regularization and Data Reduction. Journal of Biomedicine and Biotechnology No. 2010 (2010), pp.1-11.
https://search.emarefa.net/detail/BIM-505588
American Medical Association (AMA)
Fardin, Paolo& Cornero, Andrea& Barla, Annalisa& Mosci, Sofia& Acquaviva, Massimo& Rosasco, Lorenzo…[et al.]. Identification of Multiple Hypoxia Signatures in Neuroblastoma Cell Lines by l1-l2 Regularization and Data Reduction. Journal of Biomedicine and Biotechnology. 2010. Vol. 2010, no. 2010, pp.1-11.
https://search.emarefa.net/detail/BIM-505588
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-505588