Lessons from a decade of integrating cancer copy number alterations with gene expression profiles.
Brief Bioinform
; 13(3): 305-16, 2012 May.
Article
en En
| MEDLINE
| ID: mdl-21949216
ABSTRACT
Over the last decade, multiple functional genomic datasets studying chromosomal aberrations and their downstream effects on gene expression have accumulated for several cancer types. A vast majority of them are in the form of paired gene expression profiles and somatic copy number alterations (CNA) information on the same patients identified using microarray platforms. In response, many algorithms and software packages are available for integrating these paired data. Surprisingly, there has been no serious attempt to review the currently available methodologies or the novel insights brought using them. In this work, we discuss the quantitative relationships observed between CNA and gene expression in multiple cancer types and biological milestones achieved using the available methodologies. We discuss the conceptual evolution of both, the step-wise and the joint data integration methodologies over the last decade. We conclude by providing suggestions for building efficient data integration methodologies and asking further biological questions.
Texto completo:
1
Bases de datos:
MEDLINE
Asunto principal:
Algoritmos
/
Neoplasias
Idioma:
En
Revista:
Brief Bioinform
Asunto de la revista:
BIOLOGIA
/
INFORMATICA MEDICA
Año:
2012
Tipo del documento:
Article
País de afiliación:
Estados Unidos