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  1. H-DBAS (View Publication)
    Full Name of the Resource : Human database of alternative splicing
    Resource Category : Databases -> Nucleotide Sequence Databases -> Gene Structure, Introns and Exons, Splice Sites

    Brief Description : The Human-transcriptome DataBase for Alternative Splicing (H-DBAS) is a specialized database of alternatively spliced human transcripts. In this database, each of the alternative splicing variants corresponds to a completely sequenced and carefully annotated human full-length cDNA, one of those collected for the H-Invitational human transcriptome annotation meeting. H-DBAS contains 38 664 representative alternative splicing variants in 11 744 loci, in total. The data is retrievable by various features of alternative splicing, which were annotated according to manual annotations, such as by patterns of alternative splicings, consequently invoked alternations in the encoded amino acids and affected protein motifs, GO terms, predicted subcellular localization signals and transmembrane domains. The database also records recently identified very complex patterns of alternative splicing, in which two distinct genes seemed to be bridged, nested or degenerated (multiple CDS): in all three cases, completely unrelated proteins are encoded by a single locus. By using AS Viewer, each alternative splicing event can be analyzed in the context of full-length cDNAs, enabling the user?s empirical understanding of the relation between alternative splicing event and the consequent alternations in the encoded amino acid sequences together with various kinds of affected protein motifs. H-DBAS is accessible at http://jbirc.jbic.or.jp/h-dbas/.
    Subject Area : Human Transcriptome; Alternative Splicing


    Institute/s :
    Integrated Database Group, Japan Biological Information Research Center, Japan Biological Informatics Consortium, Japan
    Address of Institute/s :
    Integrated Database Group, Japan Biological Information Research Center, Japan Biological Informatics Consortium, AIST Bio-IT Research Bldg., Aomi 2-42, Koto-ku, Tokyo 135-0064, Japan
    Country : Japan

    Associated Institutes :

    • Integrated Database Group, Japan Biological Information Research Center, Japan Biological Informatics Consortium, AIST Bio-IT Research Bldg., Aomi 2-42, Koto-ku, Tokyo 135-0064, Japan
    • Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, AIST Bio-IT Research Bldg., Aomi 2-42, Koto-ku, Tokyo 135-0064, Japan
    • Department of Medical Genome Sciences, Graduate School of Frontier Sciences, the University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa, Chiba 277-8562, Japan
    • Computational Biology Research Center, National Institute of Advanced Science and Technology, AIST Bio-IT Research Bldg., Aomi 2-42, Koto-ku, Tokyo 135-0064, Japan
    • Kazusa DNA Research Institute, 2-6-7 Kazusa-Kamatari, Kisarazu, Chiba 292-0818, Japan
    • Maze Corporation, TS Bldg. 101, 3-20-2 Hatagaya, Shibuya-ku, Tokyo 151-0072, Japan
    • Center for Information Biology and DDBJ, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
    • Graduate School of Information Science and Technology, Hokkaido University, North 14, West 9, Kita-ku, Sapporo, Hokkaido 060-0814, Japan

    Associated Country : Japan


    Authors/Contributors : Takeda, J.
    Contact Email : jtakeda@jbirc.aist.go.jp
    Year : 2007
    Language : English

    Keywords : *Alternative Splicing; Computer Graphics; DNA, Complementary/*chemistry; *Databases, Nucleic Acid; Humans; Internet; Proteins/chemistry/genetics; Sequence Analysis, DNA; User-Computer Interface