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Mini pig tongue tissue section stained with masson trichrome. Sample courtesy: Alexander Lomow, Evotec, Germany
Microscopy Applications for Life Sciences

Imaging Large Brain and Tissue Sections

Whole Slide Imaging

When imaging large brain and tissue sections, you may find it difficult to set up a workflow that successfully collects your entire sample in high resolution. Or the length of time required to scan your entire sample or all your slides in the resolution you need is unachievable.

ZEISS offers solutions to make imaging brain and tissue sections quick and efficient for high throughput, yielding data that is reproducible and easy to analyze.

  • Colon tissue section from a patient with Crohn’s disease imaged using digital slide scanner. Courtesy of S. Seier Poulsen, University of Copenhagen, Denmark​ *
    Colon tissue section from a patient with Crohn’s disease imaged using digital slide scanner. Courtesy of S. Seier Poulsen, University of Copenhagen, Denmark​ *

    Colon tissue section from a patient with Crohn’s disease imaged using digital slide scanner. Courtesy of S. Seier Poulsen, University of Copenhagen, Denmark​ *

    Colon tissue section from a patient with Crohn’s disease imaged using digital slide scanner. Courtesy of S. Seier Poulsen, University of Copenhagen, Denmark​ *
  • Non-small cell lung cancer (NSCLC) tissue section imaged using digital slide scanner. Fluorescence staining with UltiMapper I/O PD L1 kit. Sample courtesy of Ultivue, Inc., USA*
    Non-small cell lung cancer (NSCLC) tissue section imaged using digital slide scanner. Fluorescence staining with UltiMapper I/O PD L1 kit. Sample courtesy of Ultivue, Inc., USA*

    Non-small cell lung cancer (NSCLC) tissue section imaged using digital slide scanner. Fluorescence staining with UltiMapper I/O PD L1 kit. Sample courtesy of Ultivue, Inc., USA*

    Non-small cell lung cancer (NSCLC) tissue section imaged using digital slide scanner. Fluorescence staining with UltiMapper I/O PD L1 kit. Sample courtesy of Ultivue, Inc., USA*
  • Non-small cell lung cancer (NSCLC) tissue section, picture detail Framed in the image (on the left side)
    Non-small cell lung cancer (NSCLC) tissue section, picture detail Framed in the image (on the left side)

    Non-small cell lung cancer (NSCLC) tissue section, picture detail
    Framed in the image (on the left side)

    Non-small cell lung cancer (NSCLC) tissue section, picture detail
    Framed in the image (on the left side)

Increase Your Whole Slide Imaging Throughput with Automated Slide Scanning

High speed slide scanners enable you to load multiple slides, set up your imaging parameters and then collect data while you’re away from the system – even overnight or over the weekend. ZEISS Axioscan 7 digitizes your slides reliably and reproducibly in high resolution for brightfield, fluorescence, or polarization microscopy. Load up to 100 slides for one automated imaging experiment.

Mouse brain slice, captured using widefield fluorescence microscopy and tiling. Sample courtesy of D. Mi, School of Life Sciences, Tsinghua University, China
Mouse brain slice, captured using widefield fluorescence microscopy and tiling. Sample courtesy of D. Mi, School of Life Sciences, Tsinghua University, China

Mouse brain slice, captured using widefield fluorescence microscopy and tiling. Sample courtesy of D. Mi, School of Life Sciences, Tsinghua University, China

Mouse brain slice, captured using widefield fluorescence microscopy and tiling. Sample courtesy of D. Mi, School of Life Sciences, Tsinghua University, China

Easy Workflows for Whole Slide Imaging Using Widefield or Zoom Microscopy

With a motorized stage and ZEISS ZEN software, automated workflows are easy to setup to collect multiple images in brightfield or fluorescence that can be stitched together to generate one seamless image. Widefield microscopes, such as the ZEISS Axio Observer inverted microscope, or the ZEISS Axio Zoom.V16 zoom microscope can support your whole slide imaging needs. Add ZEISS AI Sample Finder to increase the speed and efficiency of set-up and initiation of your imaging acquisition.

  • Overview image of mouse brain section collected using digital slide scanner.
    Overview image of mouse brain section collected using digital slide scanner.

    Overview image of mouse brain section collected using digital slide scanner.

    Overview image of mouse brain section collected using digital slide scanner.
  • Insert A shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.
    Insert A shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.

    Insert A shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.

    Insert A shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.

  • Insert B shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.
    Insert B shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.

    Insert B shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.

    Insert B shows enlarged ROI collected using confocal microscopy with Airyscan super-resolution detector.

Combine Whole Slide Imaging with Super Resolution or Ultra Resolution

ZEISS ZEN Connect software enables you to overlay and organize images from any ZEISS imaging system. For example, acquire your whole slide image using the digital slide scanner, set regions of interest, then move to super resolution with a ZEISS LSM 9 confocal or electron microscopy with ZEISS GeminiSEM and align – just once. All subsequent images will appear within context.

Mouse brain section, area 1 mm². Sample: courtesy of J. Lichtman, Harvard University, USA
Mouse brain section, area 1 mm². Sample: courtesy of J. Lichtman, Harvard University, USA

Mouse brain section, area 1 mm². Sample: courtesy of J. Lichtman, Harvard University, USA

Mouse brain section, area 1 mm². Sample: courtesy of J. Lichtman, Harvard University, USA

Large Area Ultra-resolution Imaging of Brain and Tissue Sections

Ultra-resolution imaging with scanning electron microscopes often limits researchers to imaging very small regions of their samples. The ZEISS MultiSEM family features 61 or even 91 electron beams scanning in parallel, resulting in an imaging speed of up to 1820 megapixels per second. Complemented by the advent of automated sample preparation, the promise of imaging larger (1 mm³) tissue volumes at high resolution is now within reach.

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    * The images shown on this page represent research content. ZEISS explicitly excludes  the possibility of making a diagnosis or recommending treatment for possibly affected  patients  on the basis of  the information generated with an Axioscan 7 slide scanner.