Pathway and network analysis of cancer genomes

Pau Creixell, Jüri Reimand, Syed Haider, Guanming Wu, Tatsuhiro Shibata, Miguel Vazquez, Ville Mustonen, Abel Gonzalez-Perez, John Pearson, Chris Sander, Benjamin J. Raphael, Debora S. Marks, B. F.Francis Ouellette, Alfonso Valencia, Gary D. Bader, Paul C. Boutros, Joshua M. Stuart, Rune Linding, Nuria Lopez-Bigas, Lincoln D. Stein

Research output: Contribution to journalReview article

160 Scopus citations

Abstract

Genomic information on tumors from 50 cancer types cataloged by the International Cancer Genome Consortium (ICGC) shows that only a few well-studied driver genes are frequently mutated, in contrast to many infrequently mutated genes that may also contribute to tumor biology. Hence there has been large interest in developing pathway and network analysis methods that group genes and illuminate the processes involved. We provide an overview of these analysis techniques and show where they guide mechanistic and translational investigations.

Original languageEnglish (US)
Pages (from-to)615-621
Number of pages7
JournalNature Methods
Volume12
Issue number7
DOIs
StatePublished - Jun 30 2015

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Biochemistry
  • Molecular Biology
  • Cell Biology

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    Creixell, P., Reimand, J., Haider, S., Wu, G., Shibata, T., Vazquez, M., Mustonen, V., Gonzalez-Perez, A., Pearson, J., Sander, C., Raphael, B. J., Marks, D. S., Ouellette, B. F. F., Valencia, A., Bader, G. D., Boutros, P. C., Stuart, J. M., Linding, R., Lopez-Bigas, N., & Stein, L. D. (2015). Pathway and network analysis of cancer genomes. Nature Methods, 12(7), 615-621. https://doi.org/10.1038/nmeth.3440