Histology

Overview: Explore ~400 histology slides (H&E stained) that have been harmonized to our ontology disease hierarchy. The remaining COMET slides are pending publication.

ADVANCED SEARCH - The Histology homepage (Figure 1) will comprise an advanced search page enabling filtering of slides via metadata—diagnosis, subtype, sex, age, site, evaluation, site classification— via drop-down lists. The return provides thumbnails with minimum data about the slide (e.g., subtype, sex, age, and SJID). Sample IDs can be searched individually.

Figure 1: Advanced search. A user can select Diagnosis/Subtype and other fields to filter the database of histology slides.

SAMPLE SLIDE IMAGE This view (Figure 2) enables access to each histology slide via a “sample slide page” with the associated clinical report data. Additionally, if a slide is associated to a patient with multiple slides across time, the user can easily toggle between the images (*see Figure 2 below*). Further, the user can copy the URL to share, or download the slide (.svs format) for further investigation.

Figure 2: Sample Slide Image. Preview of the slide with clinical report data. Some slides will display a timeline at the top which is interactive to toggle between slides.

OPEN SLIDE VIEWER This view (Figure 3) enables the exploration of a sample slide via a slide image viewer page supported by OpenSeaDragon (feature listed below).

Features:

Home: refreshes the slide to the original state

Magnify+: Zoom in

Magnify-: Zoom out

Rotate left: rotates slide left by 90 degrees

Rotate right: rotates slide right by 90 degrees

Slidescale: scale shows dimension

Figure 3: OpenSeaDragon Analysis. Using the OpenSeaDragon functionality enables deep exploration within the slide.