Integrating diverse genomic data using gene sets

Genome Biol. 2011 Oct 21;12(10):R105. doi: 10.1186/gb-2011-12-10-r105.


We introduce and evaluate data analysis methods to interpret simultaneous measurement of multiple genomic features made on the same biological samples. Our tools use gene sets to provide an interpretable common scale for diverse genomic information. We show we can detect genetic effects, although they may act through different mechanisms in different samples, and show we can discover and validate important disease-related gene sets that would not be discovered by analyzing each data type individually.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Area Under Curve
  • Chromosomes, Human / genetics
  • Chromosomes, Human / metabolism
  • Computational Biology
  • Computer Simulation
  • Databases, Genetic
  • Gene Dosage
  • Gene Expression Regulation, Neoplastic*
  • Genes, Neoplasm*
  • Genes, Synthetic
  • Genomics / methods*
  • Glioblastoma / genetics*
  • Glioblastoma / metabolism
  • Glioblastoma / pathology
  • Humans
  • Models, Genetic
  • ROC Curve
  • Sensitivity and Specificity
  • Software*