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Wägele, B. ; Schmidt, T.* ; Mewes, H.-W. ; Ruepp, A.

OREST: The online resource for EST analysis.

Nucleic Acids Res. 36, W140-W144 (2008)
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Open Access Gold
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The generation of expressed sequence tag (EST) libraries offers an affordable approach to investigate organisms, if no genome sequence is available. OREST (http://mips.gsf.de/genre/proj/orest/index.html) is a server-based EST analysis pipeline, which allows the rapid analysis of large amounts of ESTs or cDNAs from mammalia and fungi. In order to assign the ESTs to genes or proteins OREST maps DNA sequences to reference datasets of gene products and in a second step to complete genome sequences. Mapping against genome sequences recovers additional 13% of EST data, which otherwise would escape further analysis. To enable functional analysis of the datasets, ESTs are functionally annotated using the hierarchical FunCat annotation scheme as well as GO annotation terms. OREST also allows to predict the association of gene products and diseases by Morbid Map (OMIM) classification. A statistical analysis of the results of the dataset is possible with the included PROMPT software, which provides information about enrichment and depletion of functional and disease annotation terms. OREST was successfully applied for the identification and functional characterization of more than 3000 EST sequences of the common marmoset monkey (Callithrix jacchus) as part of an international collaboration.
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Publication type Article: Journal article
Document type Scientific Article
Keywords WHOLE GENOMES; TOOL; ANNOTATION; DATABASE; PROTEINS
ISSN (print) / ISBN 0305-1048
e-ISSN 1362-4962
Quellenangaben Volume: 36, Issue: S, Pages: W140-W144 Article Number: , Supplement: ,
Publisher Oxford University Press
Reviewing status Peer reviewed