Skip Navigation



Bioinformatics Advance Access published online on December 10, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn637
This Article
Right arrow Advance Access manuscript (PDF)
Right arrow All Versions of this Article:
25/3/417    most recent
btn637v1
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Chiquet, J.
Right arrow Articles by Ambroise, C.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Chiquet, J.
Right arrow Articles by Ambroise, C.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

SIMoNe: Statistical Inference for MOdular NEtworks

Julien Chiquet *, Alexander Smith , Gilles Grasseau , Catherine Matias and Christophe Ambroise

UMR CNRS 8071 Statistique et Génome, 523, place des Terrasses, F-91000 Évry, FRANCE

*To whom correspondence should be addressed. Dr. Julien Chiquet, E-mail: julien.chiquet{at}genopole.cnrs.fr


  Abstract

Summary: The R package SIMoNe enables inference of generegulatory networks based on partial correlation coefficients from microarray experiments. Modelling gene expression data with a Gaussian Graphical Model (hereafter GGM), the algorithm estimates nonzero entries of the concentration matrix, in a sparse and possibly high-dimensional setting. Its originality lies in the fact that it searches for a latent modular structure to drive the inference procedure through adaptive penalization of the concentration matrix.

Availability: Under the GNU General Public Licence at http://cran.r-project.org/web/packages/simone/

Contact: julien.chiquet{at}genopole.cnrs.fr

Associate Editor: Prof. John Quackenbush

Received on October 23, 2008; revised on December 4, 2008; accepted on December 6, 2008

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.