Scan a Slide on the Odyssey® M Imager

Once connected, click Microscope Slide on the Choose Assay page to begin imaging slides.

The following imaging settings are used in this workflow. Other settings can be entered in the Custom workflow.

  • Resolution: 10 µm

  • Available Resolution Options: 5, 10 (default), 20, 50 and 100 µm

  • Focus Offset Sample-Up: 3.50 mm

  • Focus Offset Sample-Down: 2.50 mm

Set Scan Area

  1. Select the location of slides in the Slide Holder.

  2. For each slide you select, you can draw a Scan Area indicating where the sample is on that slide.

    Click Apply To Included to apply the current Scan Area to all selected slide locations.

Choose detection options

  1. If you have multiple slides, click Edit Channels to choose detection options independently for each slide's Scan Area.

    Click the Autofill button next to detection options for one slide to apply the options for that slide to all slides below it in the list.

  2. Click Scan to begin image acquisition.

Detection label reference

The detection labels listed in this table are examples. If you do not see the detection label you want to use, check its spectral characteristics to make sure it is compatible.

Channel Labels Excitation Emission Combined Selections Allowed
800 IRDye® 800CW, DyLight 800 785 nm 816 - 840 nm 700, 520, 488, RGB Trans
700 IRDye 680RD, IRDye 680LT, Alexa Fluor 680 685 nm 721 - 740 nm 800, 520, 488, RGB Trans
520 VRDye 549, Cy3, Alexa Fluor 546, Propidium Iodide 520 nm 570 - 610 nm 800, 700, 488, RGB Trans
488 VRDye 490, FITC, Alexa Fluor 488, NucSpot 470, SYTOX Green 488 nm 519 - 543 nm 800, 700, 520, RGB Trans
RGB Trans H&E, Alcian Blue NA NA 800, 700, 520, 488

Scan

After clicking Scan on the Choose detection options page, the Scan page will open with the image acquisition process already started.

When the scan has completed, the Ready symbol will appear.

Stop Scan

If you need to stop an image acquisition before the acquisition process completes, click Stop Scan.

This will stop all pending Acquisitions and will remove any partially completed Acquisitions.

Export Acquisition

Ensure the Include all acquisitions option is selected to export every image for every channel from this acquisition process.

Export to Analyze

Click Export to Analyze to export images to a single file. Import the file into Empiria Studio® Software for analysis.

Export to Publish or Present

Click Export to Publish or Present to export image file(s). Images exported using this method are not intended for analysis.

Images can be exported as high resolution TIFF files (for journal publications) or as PNG files appropriate for digital presentation (such as a slide show).

When you are exporting a single image, the default export image size shown in the "Export" dialog is the largest dimension (i.e., width or height) of the image set to 10 cm (4 in), and the other dimension is set according to the aspect ratio of the image. If you change the width or height in the dialog, the other dimension will update automatically to maintain the correct aspect ratio.

See View Images in the Image Gallery for more information.

Workflow

  • Click Start New to return to the beginning of the workflow to acquire another gel image.
  • Click Rescan to acquire new image(s) with the same settings.
  • Click Home to disconnect from the imager and return to the Home page.