GeneLynx: a gene-centric portal to the human genome - PubMed (original) (raw)

GeneLynx: a gene-centric portal to the human genome

B Lenhard et al. Genome Res. 2001 Dec.

Abstract

GeneLynx is a meta-database providing an extensive collection of hyperlinks to human gene-specific information in diverse databases available on the Internet. The GeneLynx project is based on the simple notion that given any gene-specific identifier (accession number, gene name, text, or sequence), scientists should be able to access a single location that provides a set of links to all the publicly available information pertinent to the specified human gene. GeneLynx was implemented as an extensible relational database with an intuitive and user-friendly Web interface. The data are automatically extracted from more than 40 external resources, using appropriate approaches to maximize coverage of the available data. Construction and curation of the system is mediated by a custom set of software tools. An indexing utility is provided to facilitate the establishment of hyperlinks in external databases. A unique feature of the GeneLynx system is a communal curation system for user-aided annotation. GeneLynx can be accessed freely at http://www.genelynx.org.

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Figures

Figure 1

Figure 1

A screenshot of the GeneLynx record Web page, containing a comprehensive set of links for the given gene (hypoxanthine phosphoribosyltransferase 1 is shown).

Figure 2

Figure 2

A screenshot of the GeneLynx user comment submission interface. The submitted comment, together with the curator's response, is available for users to consider.

Figure 3

Figure 3

A scheme of a subset of the associations-building procedure used for the construction of GeneLynx database. The central (shaded) items are the associations between GeneLynx and other resources.

Figure 4

Figure 4

A screenshot of the Resolver curation tool for resolving ambiguous associations. The one-to-many relationship between a GeneLynx cDNA cluster and associated UniGene clusters is resolved by inspecting an array of dot plots. The curator can, if necessary, consult NCBI records for each cDNA and UniGene cluster, which are accessed via provided hyperlinks.

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