Systematic prediction of gene function in Arabidopsis thaliana using a probabilistic functional gene network

Nat Protoc. 2011 Aug 25;6(9):1429-42. doi: 10.1038/nprot.2011.372.

Abstract

AraNet is a functional gene network for the reference plant Arabidopsis and has been constructed in order to identify new genes associated with plant traits. It is highly predictive for diverse biological pathways and can be used to prioritize genes for functional screens. Moreover, AraNet provides a web-based tool with which plant biologists can efficiently discover novel functions of Arabidopsis genes (http://www.functionalnet.org/aranet/). This protocol explains how to conduct network-based prediction of gene functions using AraNet and how to interpret the prediction results. Functional discovery in plant biology is facilitated by combining candidate prioritization by AraNet with focused experimental tests.

Publication types

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

MeSH terms

  • Arabidopsis / genetics*
  • Arabidopsis Proteins / chemistry
  • Arabidopsis Proteins / genetics*
  • Arabidopsis Proteins / physiology
  • Gene Regulatory Networks*
  • Genes, Plant / physiology*
  • Genome, Plant
  • Genomics / methods
  • Internet
  • Software*

Substances

  • Arabidopsis Proteins