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- Title
MageComet—web application for harmonizing existing large-scale experiment descriptions.
- Authors
Xue, Vincent; Burdett, Tony; Lukk, Margus; Taylor, Julie; Brazma, Alvis; Parkinson, Helen
- Abstract
Motivation: Meta-analysis of large gene expression datasets obtained from public repositories requires consistently annotated data. Curation of such experiments, however, is an expert activity which involves repetitive manipulation of text. Existing tools for automated curation are few, which bottleneck the analysis pipeline.Results: We present MageComet, a web application for biologists and annotators that facilitates the re-annotation of gene expression experiments in MAGE-TAB format. It incorporates data mining, automatic annotation, use of ontologies and data validation to improve the consistency and quality of experimental meta-data from the ArrayExpress Repository.Availability and implementation: Source and tutorials for MageComet are openly available at goo.gl/8LQPR under the GNU GPL v3 licenses. An implementation can be found at goo.gl/IdCuAContact: parkinson@ebi.ac.uk or xue.vin@gmail.com
- Subjects
META-analysis; GENE expression; INSTITUTIONAL repositories; ANNOTATIONS; BIOLOGISTS; BIOINFORMATICS; ONTOLOGIES (Information retrieval)
- Publication
Bioinformatics, 2012, Vol 28, Issue 10, p1402
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/bts148