Asterias: Integrated Analysis of Expression and ACGH Data Using an Open-source, Web-based, Parallelized Software Suite

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2007 May 10

PMID 17488846

Citations 11

Authors

Ramon Diaz-Uriarte

Andreu Alibes

Edward R Morrissey

Andres Canada

Oscar M Rueda

Mariana L Neves

Affiliations

Soon will be listed here.

Abstract

Asterias (http://www.asterias.info) is an open-source, web-based, suite for the analysis of gene expression and aCGH data. Asterias implements validated statistical methods, and most of the applications use parallel computing, which permits taking advantage of multicore CPUs and computing clusters. Access to, and further analysis of, additional biological information and annotations (PubMed references, Gene Ontology terms, KEGG and Reactome pathways) are available either for individual genes (from clickable links in tables and figures) or sets of genes. These applications cover from array normalization to imputation and preprocessing, differential gene expression analysis, class and survival prediction and aCGH analysis. The source code is available, allowing for extention and reuse of the software. The links and analysis of additional functional information, parallelization of computation and open-source availability of the code make Asterias a unique suite that can exploit features specific to web-based environments.

Citing Articles

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High-resolution genome-wide analysis of chromosomal alterations in elastofibroma.

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ArrayMining: a modular web-application for microarray analysis combining ensemble and consensus methods with cross-study normalization.

Glaab E, Garibaldi J, Krasnogor N BMC Bioinformatics. 2009; 10:358.

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Survival Online: a web-based service for the analysis of correlations between gene expression and clinical and follow-up data.

Corradi L, Mirisola V, Porro I, Torterolo L, Fato M, Romano P BMC Bioinformatics. 2009; 10 Suppl 12:S10.

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