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Home » 2011 » August » 11 » Specialized Databases
2:32 PM
Specialized Databases

Specialized Databases are:
  1. Specialized sequence databases
    • dbEST (Database of Expressed Sequence Tags at NCBI, USA)
    • TGI (TIGR Genome Indices, integrated analysis of public EST data, TIGR, USA)
      Mendel ESTs (Database of annotated plant ESTs in dbEST at JIC, Norwich, UK)
    • Bodymap (Human and mouse genome expression database (ESTs) at University of Tokyo, JP)
    • dbGSS (Database of Genome Survey Sequences at NCBI, USA)
    • dbSNP (Database of Single Nucleotide Polymorphisms at NCBI, USA)
    • SNPper (SNP explorer by Children's Hospital Informatics Program, Boston, USA)
    • dbSTS (Database of Sequence Tagged Sites at NCBI, USA)
    • HGVBASE (Human Genome Variation database, European consortium involving the Karolinska Institute (Sweden), EBI (UK) and EMBL (Germany)
    • RNA databases
      • ssu and lsu rRNA database (European ribosomal database at University of Ghent, Belgium)
      • RDP (Ribosomal database Project, Michigan State University, USA)
      • miRNA Registry (microRNA registry at the Sanger Insitute, UK)
  2. Genome databases
    •  Collections
      • GOLD (Genomes On Line Database: list of all complete and ongoing genome projects worldwide at University of Illinois, USA)
      • Genomes at NCBI (NCBI, USA)
      • Organism Specific Databases (at CMS Molecular Biology Resource, SDSC, USA)
      • TIGR Database (TDB) (The Institute for Genomic Research, Rockeville MD, USA)
      • Microbial Genomes (Completed microbial genomes in GenBank and links to genomes in progress)
      • PEDANT (Browse computationally analyzed completed and unfinished genomes at MIPS, Munich, Germany)
      • Ensembl (Automatically annotated genomes at EBI, UK)
      • GeneQuiz (Highly automated analysis of completed genomes at EBI, UK)
      • HAMAP (Highly automated microbial annotation of proteins at ExPaSy, CH)
      • UK CropNet (UK Crop Plant Bioinformatics Network, at JICIGERNASC and SCRI, UK)
      • ArkDb (Livestock animal genome and mapping database at Roslin Institute, Edinburg, UK)
      • MITOP (MITOchondria Project, database mitochondria-related genes, proteins and diseases at MIPS, Munich, Germany)
      • Codon Usage Database (Organism specific codon usage database at Kazuasa DNA Research Institute, Jp)
      • GeneCensus (Comparative genomics database at Yale University, USA)
    • Model organism databases
      • Escherichia coli
      • S. cerevisiae (Baker's yeast)
        • SGD
           (Yeast genome database at Stanford, USA)
        • CYGD
           (MIPS Comprehensive Yeast Genome Database, Neuherberg, Germany)
      • Arabidopsis thaliana
      • Oryza sativa (Rice)
        • RGP (Rice Genome Research Programme, Jp)
        • Gramene (Comparative mapping resource for graines)
        • INE (Integrated rice genome explorer: common database of the International Rice Genome Sequencing Project, IRGSP, Jp)
      • Caenorhabditis elegans
        • WormBase (C. elegans database at Cold Spring Harbor Laboratories, USA)
      • Drosophila melanogaster (Fruit fly)
        • FlyBase (Drosophila genome database)
        • BDGP (Berkeley Drosphila genome project)
      • Danio rerio (Zebrafish)
      • Mus musculus (Mouse)
        • MGI (Mouse genome informatics)
      • Homo sapiens
        • GDB
           (The human Genome Database, Toronto, Canada)
        • HIB
           (HumanInfoBase of annotated UniGene clusters - putative human gene transcripts - at MIPS, Germany)
        • Human genome resources
           (at NCBI, USA)
        • Human genome browser
           (at the University of California Santa Cruz, USA)
        • HGP
           (Human Genome Project at the Sanger Institute, Cambridge, UK)
        • GeneLinks (Portal to hyperlinks for each human gene at the Center for Genomics and Bioinformatics, Karolinska Institutet, Stockholm, Sweden)

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