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The array cDNA clones were annotated using SOURCE Stanford Microarray Databasee) and the Entrez GeneID was used as the mapping identifier for the Affymetrix HG-U133A array.
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BioMart may also be used for annotating experiments or for mapping identifiers to genes and vice a versa.
Though there are several tools for mapping identifiers, 68– 70 significant manual effort is still required.
In this article we provide a technical guide to the BridgeDb app for mapping identifiers in Cytoscape.
The identifier mapping dialog is the main interface for mapping identifiers stored in the node table in the selected Cytoscape network.
It is highly recommended to download and use the BridgeDb database files for mapping identifiers in large networks in order to save time.
When deep sequencing data is produced without a fully sequenced genome that reads can be mapped to, SeaSight can still be used for analyses given a mapping of identifiers for the measured transcription levels.
An annotation application based on a metabolite masking strategy would be better suited to mapping between identifiers for such metabolites.
An InChI based metabolite annotation application has the potential to enable fully automatic mapping between identifiers for metabolites with defined structures.
When names are input to an InChI based mapping application, identifiers for different but equally valid structures may be returned leading to increased coverage.
A key aspect of the identifier/locator separation is to design an identifier-to-locator mapping service to map identifiers onto locators.
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