Digital Slide Scanning

Zen Blue

At the CDRF we have an AxioScan.Z1 digital slide scanner. This technology allows whole slide scanning of your specimens into a digital format and is the basis of virtual microscopy and digital pathology.

Advantages of slide scanning

  • Digital images of whole tissue sections, not just individual fields of view.
  • Ease of viewing and analysis with free Zeiss software on your own computer on your own time.
  • Digital image permits analysis and annotation by computational methods.
  • Automated imaging of up to 100 slides per run reduces time handling slides.
  • Easily share images and collaborate using our network server or offline files. Easy access to your digital archive. Take a look at an online demo of the Zen Browser.

Our Zeiss AxioScan.Z1 can scan at magnifications of 5x, 10x, 20x, 40x and 63x (dry). The following fluorescent filters are available (click for spectra):

DAPI
GFP
CY3

Submitting slides for scanning

Please complete the scan request form. This form is also available in the histology lab. 

Scan request form

Slides may be delivered to the MELSS histology lab in the Heath Sciences building (room 2008) or sent directly to the CDRF through internal mail (attn: Stephen Hill, Department of Ocean Sciences). Slides are also accepted from external clients (please contact us for more information).

  1. We will create a new scan profile for new sample types. In the case of simple sample types an existing profile may be used and the setup fee will be waved. This is done once for each type of sample so please identify the scan profile to use on subsequent deliveries of this type (and to avoid the profile set-up charge).
  2. If no set-up charge is needed because an existing profile may be used, there is a small handling charge. Please send slides in batches when possible.
  3. An individual per slide fee is charged.
    1. Simple slides are those scanned at 20x with no special processing such as Z-stacks or fluorescence.
    2. Advanced slides are those done at higher magnification, have fluorescence, Z-stack or otherwise require a complex scan profile.

Scanning fees

Online retrieval and hosting of files

The Zen browser is currently not available. A notification will be made when it is available.

Your files will be uploaded for access via the Zeiss Zen Browser. The browser is a quick way to view and share these large digital files.

  • New scans will be available at no cost on the server for a period of 2 weeks.
  • Files will be deleted after two weeks.
  • To retain files online indefinitely for shared access, there is an annual fee (details coming soon).

Contact

Ocean Sciences

230 Elizabeth Ave, St. John's, NL, CANADA, A1B 3X9

Postal Address: P.O. Box 4200, St. John's, NL, CANADA, A1C 5S7

Tel: (709) 864-8000