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  1. OriDB (View Publication)
    Full Name of the Resource : DNA Replication Origin Database: Confirmed and predicted sites
    Resource Category : Databases -> Nucleotide Sequence Databases -> Coding and Coding DNA: Genes, Motifs and Regulatory Sites

    Brief Description : OriDB provides a web-based catalogue of confirmed and predicted DNA replication origin sites. At present this is limited to budding yeast (S. cerevisiae). Each proposed or confirmed origin site appears as a record in OriDB, with each record comprising seven pages. These pages provide, in text and graphical formats, the following information: genomic location and chromosome context of the origin site; time of origin replication; DNA sequence of proposed or experimentally confirmed origin elements; free energy required to open the DNA duplex (stress-induced DNA duplex destabilization or SIDD); and phylogenetic conservation of sequence elements. In addition, OriDB encourages community submission of additional information for each origin site through a User Notes facility. Origin sites are linked to several external resources, including the Saccharomyces Genome Database (SGD) and relevant publications at PubMed. Finally, a Chromosome Viewer utility allows users to interactively generate graphical representations of DNA replication data genome-wide. OriDB is accessible at http://www.oridb.org/.
    Subject Area : DNA Replication Site


    Institute/s :
    Institute of Medical Science, University of Aberdeen Foresterhill, Skotland, UK
    Address of Institute/s :
    Institute of Medical Science, University of Aberdeen Foresterhill, Aberdeen AB25 2ZD, Scotland, UK
    Country : United Kingdom

    Associated Institutes :

    • Institute of Medical Science, University of Aberdeen Foresterhill, Aberdeen AB25 2ZD, Scotland, UK
    • UC Davis Genome Center, University of California at Davis One Shields Avenue, Davis, CA 95616, USA

    Associated Country : United Kingdom; USA


    Authors/Contributors : Cheuk C. Siow; Sian R. Nieduszynska; Carolin A. Muller; Conrad A. Nieduszynski
    Contact Email : conrad@oridb.org
    Year : 2007
    Language : English

    Keywords : Chromosomes, Fungal; Computer Graphics; DNA Replication; DNA, Fungal / chemistry; Databases, Nucleic Acid; Internet; Replication Origin; Saccharomyces cerevisiae / genetics; User-Computer Interface