Imaging: Scan Your Slide

This imaging technique allows samples to be analyzed in offices and labs away from the microscope facility and by many people simultaneously. To do this, samples (usually tissue sections or well plates) are scanned at sub-micron resolutions and stored as calibrated digital image scans on the network. 

This means that the microscope is only occupied for as long as it takes to collect the scans of the samples. In contrast, when using live imaging for analysis, the microscope and BIOQUANT are occupied for as long as it takes to collect the data.

To collect data, a scientist uses a computer with the BIOQUANT LIFE SCIENCE software to retrieve and analyze the scans. This workstation is often located in an office or lab away from the microscopy facility. With a scan, BIOQUANT lets you measure at any magnification: even creating "virtual objectives" like 0.25x so you can see even the largest sections in one field of view.

There are many ways to image scans at different price levels and levels of functionality. See options below.


BIOQUANT SCAN is automation software for the microscopic scanning of tissue sections and well plates.

It works in conjunction with one of the following scanning solutions:

The scans it creates store calibration data internally. When the scan in loaded on a BIOQUANT LIFE SCIENCE system, the analysis software automatically calibrates itself. This guarantees that data collected are always reported in proper calibrated units, regardless of the magnification used to create the scan or the magnification used to collect the data.

Third Party Scanning Solutions

Several third party companies provide solutions for digital pathology slide scanning. Chances are, if your lab is associated with a Hopsital, there's an Aperio slide scanner somewhere in the histology core. These scanners produce beautiful scans of histology mounded on standard 1x3 glass slides. The ImageScope software is distributed freely by Aperio and can export scans in BMP format for analysis in BIOQUANT OSTEO.
Another scanner is made by Hamamatsu called the Nanozoomer. It too creates beautiful scans of histology.

If your facility has an imaging core, ask them about slide scanning options.

Microsoft Image Composite Editor

  Montage creation in Microsoft Image Composite Editor

Montage creation in Microsoft Image Composite Editor

For those with a limited budget, the Microsoft Image Composite Editor may be a solution for stitching images together exported from third party capture software, or exported from BIOQUANT, if you do not have BIOQUANT SCAN and one of the Microscope Upgrade Kits.

As part of it's Research Labs division, Microsoft has create the free Image Composite Editor, a software solution for creating a seamless beautiful large image out of many smaller overlapping images.

Originally intended for use with panoramic photographs, it is spectacularly good at stitching photomicrographs together as well. There's no need to capture images in a "grid" pattern; images only need to overlap about 15%. The software automatically assembles the images and corrects for shading irregularities.
It exports BMP and JPG images which can be analyzed in BIOQUANT OSTEO.

The Microsoft Image Composite Editor solution does require much more laboratory time to capture the initial images, stitch them together in the Microsoft Image Composite Editor, and them import into BIOQUANT OSTEO for analysis. This solution also requires the BIOQUANT Imaging Extensions Add-on to support the import of very large, digital files.