Jun 23, 2014

Estimating cellular pathways from an ensemble of heterogeneous data sources

BioRxiv : the Preprint Server for Biology
Alexander FranksEdoardo Airoldi

Abstract

Building better models of cellular pathways is one of the major challenges of systems biology and functional genomics. There is a need for methods to build on established expert knowledge and reconcile it with results of high-throughput studies. Moreover, the available data sources are heterogeneous and need to be combined in a way specific for the part of the pathway in which they are most informative. Here, we present a compartment specific strategy to integrate edge, node and path data for the refinement of a network hypothesis. Specifically, we use a local-move Gibbs sampler for refining pathway hypotheses from a compendium of heterogeneous data sources, including novel methodology for integrating protein attributes. We demonstrate the utility of this approach in a case study of the pheromone response MAPK pathway in the yeast S. cerevisiae.

  • References
  • Citations

References

  • We're still populating references for this paper, please check back later.
  • References
  • Citations

Citations

  • This paper may not have been cited yet.

Mentioned in this Paper

Biochemical Pathway
Mitogen-Activated Protein Kinases
Yeasts
Reconcile
Genomics
Protein Serine/Threonine Kinase Activity
MAP Kinase Gene
Response to Pheromone
Anatomical Compartments
MAP Kinase Activity

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.

Related Papers

Annual Review of Biochemistry
J Kurjan
BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology
J P Hirsch, F R Cross
Annals of the New York Academy of Sciences
E H KERNER
© 2020 Meta ULC. All rights reserved