Your browser doesn't support javascript.
loading
Beyond Synthetic Lethality: Charting the Landscape of Pairwise Gene Expression States Associated with Survival in Cancer.
Magen, Assaf; Das Sahu, Avinash; Lee, Joo Sang; Sharmin, Mahfuza; Lugo, Alexander; Gutkind, J Silvio; Schäffer, Alejandro A; Ruppin, Eytan; Hannenhalli, Sridhar.
Afiliación
  • Magen A; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA; Department of Oncological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 1
  • Das Sahu A; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Department of Biostatistics and Computational Biology, Harvard School of Public Health, Boston, MA, USA; Massachusetts General Hospital Cancer Center, Harvard Medical School, Boston, MA, USA.
  • Lee JS; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA.
  • Sharmin M; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Department of Genetics, Stanford University, Stanford, CA, USA.
  • Lugo A; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA.
  • Gutkind JS; Moores Cancer Center, University of California San Diego, La Jolla, CA, USA.
  • Schäffer AA; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. Electronic address: alejandro.schaffer@nih.gov.
  • Ruppin E; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. Electronic address: eytan.ruppin@nih.gov.
  • Hannenhalli S; Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. Electronic address: sridhar@umiacs.umd.edu.
Cell Rep ; 28(4): 938-948.e6, 2019 07 23.
Article en En | MEDLINE | ID: mdl-31340155
The phenotypic effect of perturbing a gene's activity depends on the activity level of other genes, reflecting the notion that phenotypes are emergent properties of a network of functionally interacting genes. In the context of cancer, contemporary investigations have primarily focused on just one type of functional relationship between two genes-synthetic lethality (SL). Here, we define the more general concept of "survival-associated pairwise gene expression states" (SPAGEs) as gene pairs whose joint expression levels are associated with survival. We describe a data-driven approach called SPAGE-finder that when applied to The Cancer Genome Atlas (TCGA) data identified 71,946 SPAGEs spanning 12 distinct types, only a minority of which are SLs. The detected SPAGEs explain cancer driver genes' tissue specificity and differences in patients' response to drugs and stratify breast cancer tumors into refined subtypes. These results expand the scope of cancer SPAGEs and lay a conceptual basis for future studies of SPAGEs and their translational applications.
Asunto(s)
Palabras clave
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Regulación Neoplásica de la Expresión Génica / Mutaciones Letales Sintéticas / Neoplasias Tipo de estudio: Risk_factors_studies Límite: Humans Idioma: En Revista: Cell Rep Año: 2019 Tipo del documento: Article Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Regulación Neoplásica de la Expresión Génica / Mutaciones Letales Sintéticas / Neoplasias Tipo de estudio: Risk_factors_studies Límite: Humans Idioma: En Revista: Cell Rep Año: 2019 Tipo del documento: Article Pais de publicación: Estados Unidos