title: Interactome-transcriptome integration for predicting distant metastasis in breast cancer.
abstract: BACKGROUND
  High-throughput gene expression profiling yields genomic signatures that allow the prediction of clinical conditions including patient outcome. However, these signatures have limitations, such as dependency on the training set, and worse, lack of generalization.
  
  
  RESULTS
  We propose a novel algorithm called ITI (interactome-transcriptome integration), to extract a genomic signature predicting distant metastasis in breast cancer by superimposition of large-scale protein-protein interaction data over a compendium of several gene expression datasets. Training on two different compendia showed that the estrogen receptor-specific signatures obtained are more stable (11-35% stability), can be generalized on independent data and performs better than previously published methods (53-74% accuracy).
  
  
  BACKGROUND
  The ITI algorithm source code from analysis are available under CeCILL from the ITI companion website: http://bioinformatique.marseille.inserm.fr/iti.
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Aix-Marseille Univ, F-13284 Marseille, France. maxime.garcia@inserm.fr
authors.forename: Maxime
authors.initials: M
authors.lastname: Garcia
authors.forename: Raphaelle
authors.initials: R
authors.lastname: Millat-Carus
authors.forename: François
authors.initials: F
authors.lastname: Bertucci
authors.forename: Pascal
authors.initials: P
authors.lastname: Finetti
authors.forename: Daniel
authors.initials: D
authors.lastname: Birnbaum
authors.forename: Ghislain
authors.initials: G
authors.lastname: Bidaut
mesh_terms: D000465:Algorithms; D001943:Breast Neoplasms / Q000235:genetics / Q000378:metabolism / Q000473:pathology*; D005260:Female; D020869:Gene Expression Profiling; D006801:Humans; D009362:Neoplasm Metastasis; D060066:Protein Interaction Maps; D011960:Receptors, Estrogen / Q000235:genetics / Q000378:metabolism; D059467:Transcriptome
chemical_list: D011960:Receptors, Estrogen