How do I find expression data for a tissue during development?
Overview

You can use The Mouse Developmental Anatomy Browser to find anatomical terms of most interest to you, either by browsing the hierarchy of anatomical structures or by searching for specific terms. You can then use the links provided to find the expression results associated with those terms.

Accessing the Mouse Developmental Anatomy Browser

On most MGI pages, you can access the Mouse Developmental Anatomy Browser from the Search menu as shown in the image at right. Alternatively, the browser can be accessed via a link on the Gene Expression Database (GXD) homepage.

For this tutorial, open the Mouse Developmental Anatomy Browser directly in a new window. Scroll down this page for further instructions.

Search Menu Developmental Anatomy Screen Shot

Example 1. Finding all gene expression results annotated to the heart (and child terms) at Theiler Stage (TS) 17 (10-11.25 days post conception).
  1. Begin typing heart into the Anatomy Search text box and select from the drop down menu options that appear.

AD Browser Screen Shot
  1. Once selected, the left pane will update with a list indicating the selected structure along with a stage range for when that structure appears during development. These values can range from Theiler Stage 1 (1-cell embryo) to TS28 (postnatal mouse). Other terms that contain your search term also appear below.

    The top right "Anatomical Term Detail" pane will update with details of the selected term including stages, a unique identifier and the structure parent terms. (See here for more on EMAP/EMAPA). A drop down list also allows you to view stage-specific instances of the term.

    • Select TS 17 (10-11.25 dpc). This will update the number of expression results displayed in the tree view, and generate an EMAPS (EMAP-stage) ID which concatenates the EMAPA plus TS

    The lower portion of the right pane contains a hierarchical tree for mouse anatomy with the selected term highlighted. in the upper portion, with a hierarchical tree below. Finer detail anatomical structures are represented as child terms. Scroll and/or click on triangle toggles to navigate around the tree.

    • Click on the hyperlinked number of expression results next to heart in the tree view.
AD Browser heart anatomical detail
  1. The expression results appear in a table which can be (further) filtered according to Anatomical System, Assay Type, Detected (shown), Theiler Stage and wild type (versus mutant allele).

    Tabs along the top of the table allow you to navigate to a list of Genes, Assays, Assay Results (shown) and Images. Tabs can be exported as plain text or to Excel by using the buttons in the header.

Expression data for EMAPS
  1. To get detailed data, click on data in the Result Details column. This will link to specifics of the reference, experimental assay, specimen, gene expression results and available images.
AD Browser Term Detail