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  1. miRGen (View Publication)
    Full Name of the Resource : Animal microRNAs located in introns, exons, UTRs, pseudogenes and CpG islands
    Resource Category : Databases -> RNA -> RNA Sequence, Structure and Functions

    Brief Description : miRGen is an integrated database of (1) positional relationships between animal miRNAs and genomic annotation sets, and (2) mammalian miRNA targets according to combinations of widely used target prediction programs. A major goal of the database is the study of the relationship between miRNA genomic organization and miRNA function. This is made possible by three integrated and user friendly interfaces. The Genomics interface allows the user to explore where whole-genome collections of miRNAs are located with respect to UCSC genome browser annotation sets such as Known Genes, Refseq Genes, Genscan predicted genes, CpG islands, and pseudogenes. These miRNAs are connected through the Targets interface to their experimentally supported target genes from TarBase, as well as computationally predicted target genes from optimized intersections and unions of several widely used mammalian target prediction programs. Finally, the Clusters interface provides predicted miRNA clusters at any given inter-miRNA distance, and provides specific functional information on the targets of miRNAs within each cluster. All of these unique features of miRGen are designed to facilitate investigations into miRNA genomic organization, co-transcription, and targeting.
    Subject Area : Animal miRNAs; Genomic Annotations


    Institute/s :
    Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA, USA.
    Address of Institute/s :
    Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA, USA. megraw@mail.med.upenn.edu
    Country : United States

    Associated Institutes :

    • Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA, USA
    • Department of Genetics, School of Medicine, University of Pennsylvania, Philadelphia, PA, USA
    • Department of Computer and Information Science, School of Engineering, University of Pennsylvania, Philadelphia, PA, USA

    Associated Country : USA


    Authors/Contributors : Panagiotis Alexiou; Thanasis Vergoulis; Martin Gleditzsch; George Prekas; Theodore Dalamagas; Molly Megraw; Ivo Grosse; Timos Sellis; Artemis G. Hatzigeorgiou
    Contact Email : megraw@mail.med.upenn.edu
    Year : 2007
    Language : English

    Keywords : Animals; Data Interpretation, Statistical; Databases, Nucleic Acid; Genomics; Humans; Internet; Mice; MicroRNAs / genetics / physiology; Rats; User-Computer Interface