Scan a Slide
See the links on the
See the links below for emission/excitation data and example detection labels.
Scan a Slide on the Odyssey M Imager
Once connected, click 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.
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Resolution: 10 µm
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Available Resolution Options: 5, 10 (default), 20, 50 and 100 µm
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Focus Offset Sample-Up: 3.50 mm
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Focus Offset Sample-Down: 2.50 mm
Set Scan Area
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Select the location of slides in the Slide Holder.
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For each slide you select, you can draw a Scan Area indicating where the sample is on that slide.
Click to apply the current Scan Area to all selected slide locations.
Choose detection options
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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. -
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 .
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.
Click to export images to a single file. Import the file into Empiria Studio® Software for analysis.
Click 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 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.
Scan a Slide on the Odyssey® F Imager
Once connected, click 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 options:
-
Focus Offset:
Set Scan Area
- Select the location of slides in the Slide Holder.
-
For each slide you select, you can draw a Scan Area indicating where the sample is on that slide.
Click to apply the current Scan Area to all selected slide locations.
Choose detection options
-
If you have multiple Scan Areas, click Edit Channels to choose detection options independently for each Scan Area.
Click the Autofill
button next to detection options for one Scan Area to apply the options for that Scan Area to all Scan Areas below it in the list. -
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 |
|---|---|---|---|
| 800 | IRDye® 800CW, DyLight 800 | 785 nm | 813 – 832 nm |
| 700 | IRDye 680LT, IRDye 680RD, Alexa Fluor 680 | 685 nm | 710 – 730 nm |
| 520 | VRDye™ 549 Secondary Antibodies, Cy3, Alexa Fluor 546, Propidium Iodide | 520 nm | 570 – 610 nm |
| 488 | VRDye™ 490 Secondary Antibodies, Alexa Fluor 488, NucSpot 488, STYOX Green | 488 nm | 538 – 552 nm |
*All channels shown are available in this workflow for the 4-laser Odyssey F (9180). The 700 and 800 channels are available for the 2-laser Odyssey F (9150).
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 .
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.
Click to export images to a single file. Import the file into Empiria Studio® Software for analysis.
Click 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 to return to the beginning of the workflow to acquire another membrane 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.
Scan a Slide on the Odyssey DLx Imager or Odyssey CLx Imager
Once connected, click 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: 21 µm
-
Resolution Options: 21 (default), 42, 84, 169 µm
-
Focus Offset: 1.00 mm
Set Scan Area
- Draw multiple Scan Areas to image multiple slides.
- Adjust the exact size and location of a Scan Area. Select a Scan Area, then adjust the number in the X location, Y location, Width, and Height fields in the Control Panel.
Choose detection options
-
If you have multiple Scan Areas, click Edit Channels to choose detection options independently for each Scan Area.
Click the Autofill
button next to detection options for one Scan Area to apply the options for that Scan Area to all Scan Areas below it in the list. -
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 | 812 – 832 nm | 700 |
| 700 | IRDye 680RD, IRDye 680LT | 685 nm | 710 – 730 nm | 800 |
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 .
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.
Click to export images to a single file. Import the file into Empiria Studio® Software for analysis.
Click 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 to return to the beginning of the workflow to acquire another membrane 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.