Indirect genomic effects on survival from gene expression data

Egil Ferkingstad; Arnoldo Frigessi; Heidi Lyng

doi:10.1186/gb-2008-9-3-r58

Indirect genomic effects on survival from gene expression data

Genome Biol. 2008;9(3):R58. doi: 10.1186/gb-2008-9-3-r58. Epub 2008 Mar 22.

Authors

Egil Ferkingstad¹, Arnoldo Frigessi, Heidi Lyng

Affiliation

¹ Department of Biostatistics and (sfi) Statistics for Innovation, University of Oslo, Gaustadalleen, Oslo, NO-0314, Norway. egil.ferkingstad@medisin.uio.no

Abstract

In cancer, genes may have indirect effects on patient survival, mediated through interactions with other genes. Methods to study the indirect effects that contribute significantly to survival are not available. We propose a novel methodology to detect and quantify indirect effects from gene expression data. We discover indirect effects through several target genes of transcription factors in cancer microarray data, pointing to genetic interactions that play a significant role in tumor progression.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Computational Biology / methods*
Female
Gene Expression*
Genomics
Humans
Male
Neoplasms / genetics*
Neoplasms / mortality*
Oligonucleotide Array Sequence Analysis
Regression Analysis
Transcription Factors / genetics*

Substances

Transcription Factors