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H-InvDB in 2009: extended database and data mining resources for human genes and transcripts.

Yamasaki, Chisato; Murakami, Katsuhiko; Takeda, Jun-ichi; Sato, Yoshiharu; Noda, Akiko; Sakate, Ryuichi; Habara, Takuya; Nakaoka, Hajime; Todokoro, Fusano; Matsuya, Akihiro; Imanishi, Tadashi; Gojobori, Takashi.
Nucleic Acids Res ; 38(Database issue): D626-32, 2010 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-19933760
We report the extended database and data mining resources newly released in the H-Invitational Database (H-InvDB; http// H-InvDB is a comprehensive annotation resource of human genes and transcripts, and consists of two main views and six sub-databases. The latest release of H-InvDB (release 6.2) provides the annotation for 219,765 human transcripts in 43,159 human gene clusters based on human full-length cDNAs and mRNAs. H-InvDB now provides several new annotation features, such as mapping of microarray probes, new gene models, relation to known ncRNAs and information from the Glycogene database. H-InvDB also provides useful data mining resources-'Navigation search', 'H-InvDB Enrichment Analysis Tool (HEAT)' and web service APIs. 'Navigation search' is an extended search system that enables complicated searches by combining 16 different search options. HEAT is a data mining tool for automatically identifying features specific to a given human gene set. HEAT searches for H-InvDB annotations that are significantly enriched in a user-defined gene set, as compared with the entire H-InvDB representative transcripts. H-InvDB now has web service APIs of SOAP and REST to allow the use of H-InvDB data in programs, providing the users extended data accessibility.