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GUDMAP - For Clinicians

Link to the GUDMAP Disease Resource or access to it by clicking on Disease on the menu bar at the top of the page - a database of associations between genes, phenotypes and diseases related to the genitourinary system.

Link to the GUDMAP Demos - these demos illustrate how GUDMAP can be used to answer biological questions.

Given the importance of the genitourinary system for human health and reproduction, the need for a systematic molecular and cellular description of its developmental program is clearly a high priority. In late 2004, the National Institute of Diabetes, Digestive and Kidney Diseases (NIDDK) and the National Institute of Child Health and Human Development (NICHD) established an International Consortium of research groups charged with the task of producing a high quality molecular anatomy of the developing mammalian urogenital tract. The information obtained through this initiative is anticipated to enable the highest level of basic and clinical research grounded on a 21st century view of the developing anatomy.

There are three components to GUDMAP, all intended to provide resources that support research on the kidney and urogenital tract.
1) a description of genitourinary development that includes a tutorial, an ontology of anatomical parts and the molecular hallmarks of those structures.
2) novel mouse strains in which tissues of particular interest are marked and can be genetically manipulated.
3) a public database that reports the gene expression data arising from the project as soon as it becomes available (determined by in situ hybridization, immuno-staining, microarrays.)

From a clinical researcher’s perspective, the primary entry point is a table of genes associated with diseases of the urogenital system.

Features

  • Diseases
    • A searchable database of associations between genes and diseases of the urogenital system.
    • From here, users can move directly to data describing the anatomical expression of each gene. Click on the icon to the right to go to the disease pages.
    • Links to external data resources are provided in the table.
  • disease_icon
  • Database of Gene Expression
    • This can be accessed via the menu bar item at the top of the page or via the database icon to the right.
    • Users can search the raw gene expression data.
  • database_icon
       

    Examples - 1. Finding GUDMAP expression data relating to a disease/gene of interest (click on images to link to relevant page)

    1. GUDMAP Disease Resource
    The primary entry point is a searchable database of genes associated with OMIM diseases of the urogenital system. e.g. Pax2 (Renal-Coloboma Syndrome)
    From here navigate to gene expression data by clicking the gene name.
    There are also links to external data at OMIM.

    2. GUDMAP Gene Pages
    Information about Pax2 with details of the expression data in the database. Click the GUDMAP ID link for details of that entry.

    3. GUDMAP Gene Expression Data Page
    Shows in-situ hydridisation data stored within GUDMAP for Pax2


    Examples - 2. Batch query to get gene expression patterns

    Batch query

    The batch function of the GUDMAP gene expression query can be used to obtain gene expression data for a set of genes.

    Select Query > Gene > click Options

    An example use would be to upload a set of genes, from a specific region of a chromsome linked to a disease of interest. All expression data/patterns in the GUDMAP database for the genes in the uploaded set will be returned. This information can be used to select candidate genes for further investigation.

    A more detailed illustration of this example is available in the GUDMAP Demos - Demo 3: What genes, within a genetic interval, are likely to have disease-causing mutations?

    batch example