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Quick Links

  • Feature Search:Search for features by type. Filter on an additional text query if desired.
  • Gene Expression Publications: Search and browse publications with gene expression data that are stored in TBDB.
  • Samples and Conditions:
    Search for a gene over all published samples and explore the expression significance of the indicated gene.
  • Expression Profiles:
    Search for a gene in the published data sets. You will be able to explore the gene expression of the indicated gene in each publication.
  • My Repository (sign in required): Access your saved microarray data sets for further analysis.
  • BLAST - search all genomes by sequencing similarity
  • Genes - Gene annotations by functional categories
  • Download - download data files for sequence and annotation

    • Tutorial: I am studying a gene in M. tb. H37Rv. How do I find its ortholog in another strain?

    Let's say you are studying DosR (Rv3133c). You want to see how well conserved it is in M. tb. and other mycobacterial strains.

    1. First, do a basic search on 'DosR' or 'Rv3133c' and find the appropriate gene detail page.

    gene detail page

    Notice a category 'Gene Family' in the results. Click this link.

    2. This will bring you to a tree depiction of the orthologs for that gene in TBDB.

    ortholog tree

     

    The tree is derived from a multiple sequence alignment, shown below.

    sequences

    You can click on the tabs to see other views of the alignment such as the coding sequences, transcripts, and up/downstream sequences.