OrderedList--a bioconductor package for detecting similarity in ordered gene lists

Claudio Lottaz; Xinan Yang; Stefanie Scheid; Rainer Spang

doi:10.1093/bioinformatics/btl385

OrderedList--a bioconductor package for detecting similarity in ordered gene lists

Bioinformatics. 2006 Sep 15;22(18):2315-6. doi: 10.1093/bioinformatics/btl385. Epub 2006 Jul 14.

Authors

Claudio Lottaz¹, Xinan Yang, Stefanie Scheid, Rainer Spang

Affiliation

¹ Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics Ihnestrasse 63-73, D-14195 Berlin, Germany.

PMID: 16844712
DOI: 10.1093/bioinformatics/btl385

Abstract

OrderedList is a Bioconductor compliant package for meta-analysis based on ordered gene lists like those resulting from differential gene expression analysis. Our package quantifies the similarity between gene lists. The significance of the similarity score is estimated from random scores computed on perturbed data. OrderedList illustrates list similarity in intuitive plots and determines the score-driving genes for further analysis.

Availability: http://www.bioconductor.org

Contact: [email protected]

Supplementary information: Please visit our webpage on http://compdiag.molgen.mpg.de/software.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms*
Artificial Intelligence
Computer Simulation
Gene Expression Profiling / methods*
Models, Biological*
Multigene Family / physiology*
Oligonucleotide Array Sequence Analysis / methods*
Pattern Recognition, Automated
Software*