Skip Navigation



Bioinformatics Advance Access published online on May 18, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl196
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow All Versions of this Article:
22/15/1924    most recent
btl196v1
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 Gould, J.
Right arrow Articles by Mesirov, J. P.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Gould, J.
Right arrow Articles by Mesirov, J. P.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received March 13, 2006
Revised April 21, 2006
Accepted May 15, 2006

Applications note

Comparative Gene Marker Selection suite

Joshua Gould 1 *, Gad Getz 1, Stefano Monti 1, Michael Reich 1, and Jill P. Mesirov 1

1 Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA

* To whom correspondence should be addressed.
Joshua Gould, E-mail: jgould{at}broad.mit.edu


  Abstract

Motivation: An important step in analyzing expression profiles from microarray data is to identify genes that can discriminate between distinct classes of samples. Many statistical approaches for assigning significance values to genes have been developed. The Comparative Marker Selection suite consists of three modules that allow users to apply and compare different methods of computing significance for each marker gene, a viewer to assess the results, and a tool to create derivative datasets and marker lists based on user-defined significance criteria.

Availability: The Comparative Marker Selection application suite is freely available as a GenePattern module. The GenePattern analysis environment is freely available at http://www.broad.mit.edu/genepattern.

Associate Editor: Nikolaus Rajewsky
Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Physiol. GenomicsHome page
V. B. Fedorov, A. V. Goropashnaya, O. Toien, N. C. Stewart, A. Y. Gracey, C. Chang, S. Qin, G. Pertea, J. Quackenbush, L. C. Showe, et al.
Elevated expression of protein biosynthesis genes in liver and muscle of hibernating black bears (Ursus americanus)
Physiol Genomics, April 10, 2009; 37(2): 108 - 118.
[Abstract] [Full Text] [PDF]

Home page
 J. Immunol.Home page
W. N. Haining, B. L. Ebert, A. Subrmanian, E. J. Wherry, Q. Eichbaum, J. W. Evans, R. Mak, S. Rivoli, J. Pretz, J. Angelosanto, et al.
Identification of an Evolutionarily Conserved Transcriptional Signature of CD8 Memory Differentiation That Is Shared by T and B Cells
J. Immunol., August 1, 2008; 181(3): 1859 - 1868.
[Abstract] [Full Text] [PDF]

Home page
 Cancer Res.Home page
G. Huang, R. Eisenberg, M. Yan, S. Monti, E. Lawrence, P. Fu, J. Walbroehl, E. Lowenberg, T. Golub, J. Merchan, et al.
15-Hydroxyprostaglandin Dehydrogenase is a Target of Hepatocyte Nuclear Factor 3{beta} and a Tumor Suppressor in Lung Cancer
Cancer Res., July 1, 2008; 68(13): 5040 - 5048.
[Abstract] [Full Text] [PDF]

Home page
 BloodHome page
J. Shin, S. Monti, D. J. Aires, M. Duvic, T. Golub, D. A. Jones, and T. S. Kupper
Lesional gene expression profiling in cutaneous T-cell lymphoma reveals natural clusters associated with disease outcome
Blood, October 15, 2007; 110(8): 3015 - 3027.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
Y. Saeys, I. Inza, and P. Larranaga
A review of feature selection techniques in bioinformatics
Bioinformatics, October 1, 2007; 23(19): 2507 - 2517.
[Abstract] [Full Text] [PDF]

Home page
 Cancer Res.Home page
S. Kobayashi, T. Shimamura, S. Monti, U. Steidl, C. J. Hetherington, A. M. Lowell, T. Golub, M. Meyerson, D. G. Tenen, G. I. Shapiro, et al.
Transcriptional Profiling Identifies Cyclin D1 as a Critical Downstream Effector of Mutant Epidermal Growth Factor Receptor Signaling
Cancer Res., December 1, 2006; 66(23): 11389 - 11398.
[Abstract] [Full Text] [PDF]


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.