Querying by Anatomy (Tree View and Facet View)
On this page:
- Finding anatomy search options
- Using the Anatomy Tree
- Searching anatomical terms with Faceted Search
- Elements of the Anatomy record page
Finding anatomy search options
From the menu navigation, go to BROWSE DATA > Anatomy Terms Search and choose either Anatomy Facet Search or Anatomy Tree View.
Using the Anatomy Tree
This option provides a tree structure view of anatomical terms that conforms to the GUDMAP Ontology. You can use this visualization to understand the hierarchy of anatomical regions and see any data in GUDMAP related to that region.
Start by typing an anatomical region in the search field. You may also use the dropdown button to specify a Theiler stage to indicate the age.
As a result, the tree will highlight corresponding term(s).
In the example below, we’re typing “proximal tubule” and using Theiler stage TS23 (15dpc):
Click a term to go to its Anatomy record page.
Searching anatomical terms with Faceted Search
Choosing Anatomy Terms Search takes you directly to the Anatomy section of the Data Browser.
Click the “View” icon of the row you’re interested in to view the corresponding Anatomy record page (see below).
Elements of the Anatomy record page
Let’s search for “cortical renal tubule” from the anatomy faceted search:
Here is the resulting Anatomy record page:
On the Sections sidebar to the left side of the page, you’ll see a list of available data including:
|Part of||Indicates “parent” regions to this anatomical region. For example, pelvic urethra is part of urethra.|
|Includes||Indicates “children” regions to this anatomical region. For example, pelvic urethra includes epithelium of pelvic urethra.|
|Specimen Expression Rollup||TODO|
|Anchor Gene Rollup||TODO|
|Marker Gene Rollup||TODO|
|Gene List Rollup||TODO|
|Mouse Allele Expression||TODO|