XDE

"XDE" introduces a hierarchical Bayesian model for analyzing microarray expression data across multiple studies to identify genes differentially expressed between two conditions. This model stands out for its incorporation of shrinkage across genes and studies and its flexible approach that accommodates interactions between platforms and the estimated effects, including concordant and discordant differential expressions across studies.

Topic

Gene expression;Statistics and probability;Data quality management

Detail

  • Operation: Statistical modelling;Validation;Gene expression analysis;Aggregation

  • Software interface: Command-line user interface,Library

  • Language: R

  • License: GNU General Public License, version 2

  • Cost: Free

  • Version name: 2.48.0

  • Credit: The U. S. National Institute of Environmental Health Sciences, the National Heart, Lung, and Blood Institute, the National Science Foundation, NSF.

  • Input: -

  • Output: -

  • Contact: Robert Scharpf rscharpf@jhsph.edu

  • Collection: -

  • Maturity: Stable

Publications

  • A Bayesian model for cross-study differential gene expression.
  • Scharpf RB, et al. A Bayesian model for cross-study differential gene expression. A Bayesian model for cross-study differential gene expression. 2009; 104:1295-1310. doi: 10.1198/jasa.2009.ap07611
  • https://doi.org/10.1198/jasa.2009.ap07611
  • PMID: 21127725
  • PMC: PMC2994029

Download and documentation

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