Stereo Investigator®– Whole Slide Edition

Unbiased stereology for whole-slide images
MBF Bioscience > Stereo Investigator®– Whole Slide Edition

Product Overview

Stereo Investigator – Whole Slide Edition is a specialized software application that allows researchers to use the world’s most cited stereology software – MBF Bioscience’s Stereo Investigator – to analyze 2D whole slide images accurately and efficiently using unbiased stereology. Stereo Investigator Whole Slide Edition has been tailored to 2D image data acquired from most slide scanners and microscope acquisition systems, and contains analyses for quantification of object number, fiber length, volume, and area.

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Key Benefits

Accurate Unbiased Stereology for Whole Slide Images

Stereo Investigator - Whole Slide Edition is the gold standard in unbiased stereology for use on 2D whole slide images. Design-based stereology is a set of data analysis methods that ensure integrity in the quantitative analysis of the size, shape, length, and number of objects in a tissue sample. Stereology produces results that are unbiased and more reliable than non-stereologic analyses. The Whole Slide version of Stereo Investigator is optimized for whole slide images and has a user interface that has been honed to be efficient and easy to learn.

The software works with all 2D microscope images, but is an attractive solution if you work mostly, or exclusively with slide scanners, since it has been specifically designed for analyzing large whole slide images. Stereo Investigator - Whole Slide Edition is compatible with industry standard slide scanning formats and integrates seamlessly with Biolucida, our image serving platform. This allows for organized storage of images and easy collaboration between labs.

Stereo Investigator Whole Slide Edition can analyze image data sets acquired from TissueScopeTM and Microlucida® slide scanners, Zeiss, Leica, Olympus, Huron, Hamamatsu, Aperio and more! Researchers use Stereo Investigator Whole Slide Edition to perform many types of stereological analysis. Some examples include cell population number, fiber and capillary length, area and volume of anatomical regions, area and volume of cell, and number and size of Alzheimer’s plaques. There are numerous stereological probes included in Stereo Investigator - Whole Slide Edition, including the following:

Length Number
  • Combined Point Intercept
  • Petrimetrics
  • Orthogonal Intercepts
  • Physical Fractionator
  • Fractionator
Volume/Area Surface
  • Area Fraction Fractionator
  • Nucleator
  • Cavalieri Estimator
  • Combined Point Intercepts
  • Point Sampled Intercept
  • Surface-Weighted Star Volume
  • Discrete Vertical Rotator
  • Merz
  • Weibel
  • Cycloids for Sv
  • Sv-Cycloid Fractionator
Recommended Hardware Requirements
8-Core processor
Configured with 64GB of RAM
NVIDIA 1060 graphics card (1060=6GB)
Windows 10 OS
Compatible with the following file formats
  • JP2
  • TIF
  • ND2
  • SVS
  • BTF
  • LSM
  • CZI
  • H5
  • OIB
  • OIF
  • LIF
  • And more!

Unprecedented study reveals structure-function adaptations in the facial nucleus of elephants
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Stereo Investigator System for Quantifying Neurotransmitter Switching in Human Brains Installed at Dr. Nicholas Spitzer’s Lab
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Differences Associated with Fetal Growth Restriction are Found Using Stereo Investigator
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Curcumin Lowers Neuroinflammation in Mouse Model
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MBF Bioscience research team contributes novel dendritic spine analysis in study published in Science
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Diet Restriction Slows Neurodegeneration and Extends Lifespan of DNA-Repair-Deficient Mice
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Uncovering the role of microglia in fetal alcohol spectrum disorders
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Stereological Study Reveals Neuron and Glia Proliferation in Hippocampus of Lithium-Treated Mice
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Iron Deficiency Worsens Fetal Alcohol Spectrum Disorders
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Genetic Mutation Accelerates CTE Pathology
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Dying neurons in Alzheimer’s patients show signs of improvement after gene therapy
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How Transplanted Stem Cells Behave in Injured Spinal Cord Tissue
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Delayed loss of neurons occurs in mice with mild TBI and anxiety
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Higher levels of pTau found in Alzheimer’s disease patients with psychosis
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New Neurons Erase Memories
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Scientists Use Stereo Investigator in Spinal Cord Injury Study
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Scientists Use Stereo Investigator in Spinal Cord Injury Study
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Scientists Map Photoreceptor Cells of Deep-Sea Sharks
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Humans Generate Most Cerebellar Granule Cells Postnatally
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Exercise Heals the Brain After Binge Drinking
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Scientists use Stereo Investigator to Discover that Part of the Hippocampus Shrinks in Socially Isolated Rodents
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Researchers from Quebec Delay Symptoms of Huntington’s Disease in Mouse Model
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Hawaii Scientists Measure Density of Parvalbumin-Interneurons With Stereo Investigator
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New Zealand Scientists Use Stereo Investigator to Develop a New Model for Human Extreme Prematurity
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Scientists Assess Kidney Damage with Stereo Investigator, Determine Ultrasound Prevents Organ Injury
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Munich Scientists Analyze Placenta Morphometry with Stereo Investigator
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UCLA Scientists Count Cells with Stereo Investigator in Study Identifying Compensating Regions in Brain Damage
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Increased Choline During Pregnancy Improves Learning in Down Syndrome Mice
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Study Links Increased Touch to Enhanced Neurogenesis in Adult Mice; Stereo Investigator Used for Quantification
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Wisconsin Scientists Use Stereo Investigator to Quantify Neurons Formed From Stem Cells
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Researchers Use Stereo Investigator to Identify Abnormalities in Autistic Brains
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Neurolucida & Stereo Investigator Help Uncover Cerebellar Granule Cells’ Role in Muscle Memory
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Stereo Investigator Contributes to Study Showing Low Zinc Levels Associated With More Cell Deaths in Spinal Cord Injury
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Stereo Investigator Helps Scientists Assess Damage in Rat Model of Ischemic Stroke
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Florida Researchers Study Traumatic Brain Injury With Stereo Investigator
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MBF Contributes to Recent PLOS Article on New Mouse Model for Huntington’s Disease
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Scientists at Duke Say Mice Have Features Associated With Vocal Learning
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Stereo Investigator Helps Harvard Scientists Study Social Isolation’s Effects on the Brain
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Yale Researchers Make Breakthrough in Possible Depression Treatment
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UVM Scientists Use Neurolucida and Stereo Investigator to Study Neurons in the Avian Iris
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John Hopkins University Scientists Quantify Neurons with Stereo Investigator
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UCLA Scientists use Stereo Investigator to Quantify Juvenile Neurogenesis in Mice
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DHA Supplementation Prior to Brain Injury May Reduce Severity
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Washington University Researchers use Stereo Investigator to Study Axonal Transport in Parkinson’s Model
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University of Kansas Researchers use Stereo Investigator to Map Fetal Brain Hypoxia Sites
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Stereo Investigator Assists Stanford Stroke Center Scientists in Stem Cell Research
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Toronto Scientists Get First Direct Measurement of Myometrial SMCs in Pregnant Rat Uterus With Stereo Investigator
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Scientists in Spain Track Recovery in the Auditory Cortex
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Stereo Investigator Helps Uncover Autonomic Diabetic Neuropathy Link
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Yale Scientists Say AAV5 is Best for Transduction in Primates
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Mount Sinai Scientists Research the Effect of Aging on Learning and Memory with Stereo Investigator
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Stereo Investigator Helps Washington D.C. Scientists Study the Emergence of Human Language
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Swiss Scientists Use Stereo Investigator to Study Schizophrenia
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Stereo Investigator Aids in Researching Familial Alzheimer’s Disease
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Stem Cell Transplants Aid in Spinal Recovery
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Visit our blog to read more case studies

 

Visit our blog to read more case studies

 

Visit our blog to read more case studies

Download Stereo Investigator - Whole Slide Edition product sheet here.

Stereo Investigator® - Whole Slide Edition 2023.1.1
Released February 2023

New Features and Enhancements:

  • Updated image processing and image-handling engines that greatly increase the speed of loading, viewing, and saving images  
    • Image and data files load noticeably faster than in previous releases.  
    • Image adjustments are immediately displayed in both the 2D and 3D windows 
  • Easier software authorization: the software autofills the online Authorization Request Form with information about your computer system. Just fill in a few fields with information about you and your lab to submit the form.  
  • Outline Sections function automatically draws contours around tissue sections 
  • Pipeline Ribbon organizes automatic tools in one place 
  • Batch pipeline for image filtering multiple files with minimal effort 
  • Research Resource Identifier (RRID) is now recorded in every xml data file.  
  • New Freehand Selection tools provide more options for selecting markers or contours. 

 

View Full Version History Here.

Our Range of Stereology Solutions

Feature Description

Stereo Investigator MICROSCOPE EDITION

Stereo Investigator DESKTOP EDITION

Stereo Investigator CLEARED TISSUE EDITION

Stereo Investigator WHOLE SLIDE
EDITION

The gold standard for unbiased stereology
Quantifies number, length, volume, & surface area of cells, structures, & regions
Works with 3D images
Analyzes large 3D images aquired from light sheet and confocal microscopes
Works with 2D images
Analysis with images acquired from slide scanners
Integrated microscope control to work directly with live images at the microscope
Acquire 3D/2D images for Systematic Random Sampling (SRS)

Who Is Using Stereo Investigator - Whole Slide Edition?

Stereo Investigator is used across the globe by the most prestigious laboratories. 

News About Stereo Investigator - Whole Slide Edition

Cited in Peer Reviewed Scientific Publications

Stereo Investigator has been cited in over 8,000 published research papers. 5 times more than its nearest competitor.

Frequently Asked Questions (FAQ)

What kind of images will the software work with?

The software will work with 2D whole slide images acquired from most slide scanners and research microscope imaging systems.

What types of analyses can I perform with Stereo Investigator Whole Slide Edition?

Researchers use Stereo Investigator Whole Slide Edition to perform quantitative analysis of cell populations, cell area and volume, fiber or capillary length, and area and volume of regions of interest.

What’s the difference between Stereo Investigator and Stereo Investigator Whole Slide Edition?

Both programs allow researchers to obtain quantitative data from tissue specimens. However, Stereo Investigator can be used with live or acquired images and contains analyses for both thick and thin tissue specimens, while Stereo Investigator Whole Slide Edition has been tailored to accommodate 2D images of thin tissue and therefor only contains 2D stereological probes for thin tissue.

Can I perform Optical Fractionator with Stereo Investigator Whole Slide Edition?

No. Stereo Investigator Whole Slide Edition contains 2D probes for thin tissue only. Optical Fractionator is a 3D probe for use with thick tissue and is available in MBF Bioscience’s original Stereo Investigator software. 

Testimonials

Robust Professional Support

Our service sets us apart, with a team that includes Ph.D. neuroscientists, experts in microscopy, stereology, neuron reconstruction, and image processing.  We’ve also developed a host of additional support services, including:

  • Forums
    We have over 25 active forums where open discussions take place.
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  • On-Site/Training
    We’ve conducted over 750 remote software installations.
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  • Webinars
    We’ve created over 55 webinars that demonstrate our products & their uses.
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Request an Expert Demonstration

We offer a free expert demonstration of Stereo Investigator – Whole Slide Edition. During your demonstration you’ll also have the opportunity to talk to us about your hardware, software, or experimental design questions with our team of Ph.D. neuroscientists and experts in microscopy, neuron tracing, and image processing.

Related Products

Stereo Investigator®

The complete stereology solution. The gold standard for unbiased cell counting.

 

Stereo Investigator® Cleared Tissue Edition

The gold standard in unbiased stereology for use on cleared tissue.

Cellairus®

Automatic, accurate, unbiased, high-throughput cell quantification in histological specimens.

Recorded Webinars and Videos

Introduction to: Stereo Investigator - Whole Slide Edition

Webinar: Thin tissue section images with Stereo Investigator - Whole Slide Edition