Stereo Investigator-Cleared Tissue Edition allows researchers to use the world’s most cited stereology software — MBF Bioscience’s Stereo Investigator — to analyze intact, cleared tissue specimens imaged with light sheet or confocal microscopes. Researchers around the world trust Stereo Investigator Cleared Tissue Edition for their unbiased stereology needs, including quantification of cell number, fiber length, and regional volumes and areas.
Stereo Investigator-Cleared Tissue Edition is the gold standard in unbiased stereology for use on cleared tissue. It allows researchers to use the world’s most cited stereology software—MBF Bioscience’s Stereo Investigator —to analyze intact, cleared tissue specimens imaged with light sheet or confocal microscopes, and even MicroCT. The program reads image files produced by most light sheet and confocal microscopes including ClearScope, Zeiss, Hamamatsu, Leica, Olympus, and more.
Design-based stereology is a set of data analysis methods that ensure integrity in the quantitative analysis of the size, shape, and number of objects in a tissue sample. Stereology produces results that are unbiased and more reliable than non-stereologic analyses. Traditional, unbiased stereology was created to accurately quantify tissue sections. We’ve developed a new method in Stereo Investigator Cleared Tissue Edition to solve the challenges inherent in working with large intact cleared tissue or thick slabs of cleared tissue. Image Volume Fractionator is a new, state-of-the-art stereological probe developed by MBF Bioscience to count cells in large, 3D images of intact specimens.
Along with the Image Volume Fractionator, there are numerous stereological probes included in Stereo Investigator-Cleared Tissue Edition for quantifying number, length, surface, volume, and area. These include the following:
| Number | Length |
|
|
| Volume/Area | Surface |
|
|
| 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 |
|---|
|
Unprecedented study reveals structure-function adaptations in the facial nucleus of elephants
>> Learn More
Stereo Investigator System for Quantifying Neurotransmitter Switching in Human Brains Installed at Dr. Nicholas Spitzer’s Lab
>> Learn More
Differences Associated with Fetal Growth Restriction are Found Using Stereo Investigator
>> Learn More
Curcumin Lowers Neuroinflammation in Mouse Model
>> Learn More
MBF Bioscience research team contributes novel dendritic spine analysis in study published in Science
>> Learn More
Diet Restriction Slows Neurodegeneration and Extends Lifespan of DNA-Repair-Deficient Mice
>> Learn More
Uncovering the role of microglia in fetal alcohol spectrum disorders
>> Learn More
Stereological Study Reveals Neuron and Glia Proliferation in Hippocampus of Lithium-Treated Mice
>> Learn More
Iron Deficiency Worsens Fetal Alcohol Spectrum Disorders
>> Learn More
Genetic Mutation Accelerates CTE Pathology
>> Learn More
Dying neurons in Alzheimer’s patients show signs of improvement after gene therapy
>> Learn More
How Transplanted Stem Cells Behave in Injured Spinal Cord Tissue
>> Learn More
Delayed loss of neurons occurs in mice with mild TBI and anxiety
>> Learn More
Higher levels of pTau found in Alzheimer’s disease patients with psychosis
>> Learn More
New Neurons Erase Memories
>> Learn More
Scientists Use Stereo Investigator in Spinal Cord Injury Study
>> Learn More
Scientists Use Stereo Investigator in Spinal Cord Injury Study
>> Learn More
Scientists Map Photoreceptor Cells of Deep-Sea Sharks
>> Learn More
Humans Generate Most Cerebellar Granule Cells Postnatally
>> Learn More
Exercise Heals the Brain After Binge Drinking
>> Learn More
Scientists use Stereo Investigator to Discover that Part of the Hippocampus Shrinks in Socially Isolated Rodents
>> Learn More
Researchers from Quebec Delay Symptoms of Huntington’s Disease in Mouse Model
>> Learn More
Hawaii Scientists Measure Density of Parvalbumin-Interneurons With Stereo Investigator
>> Learn More
New Zealand Scientists Use Stereo Investigator to Develop a New Model for Human Extreme Prematurity
>> Learn More
Scientists Assess Kidney Damage with Stereo Investigator, Determine Ultrasound Prevents Organ Injury
>> Learn More
Munich Scientists Analyze Placenta Morphometry with Stereo Investigator
>> Learn More
UCLA Scientists Count Cells with Stereo Investigator in Study Identifying Compensating Regions in Brain Damage
>> Learn More
Increased Choline During Pregnancy Improves Learning in Down Syndrome Mice
>> Learn More
Study Links Increased Touch to Enhanced Neurogenesis in Adult Mice; Stereo Investigator Used for Quantification
>> Learn More
Wisconsin Scientists Use Stereo Investigator to Quantify Neurons Formed From Stem Cells
>> Learn More
Researchers Use Stereo Investigator to Identify Abnormalities in Autistic Brains
>> Learn More
Neurolucida & Stereo Investigator Help Uncover Cerebellar Granule Cells’ Role in Muscle Memory
>> Learn More
Stereo Investigator Contributes to Study Showing Low Zinc Levels Associated With More Cell Deaths in Spinal Cord Injury
>> Learn More
Stereo Investigator Helps Scientists Assess Damage in Rat Model of Ischemic Stroke
>> Learn More
Florida Researchers Study Traumatic Brain Injury With Stereo Investigator
>> Learn More
MBF Contributes to Recent PLOS Article on New Mouse Model for Huntington’s Disease
>> Learn More
Scientists at Duke Say Mice Have Features Associated With Vocal Learning
>> Learn More
Stereo Investigator Helps Harvard Scientists Study Social Isolation’s Effects on the Brain
>> Learn More
Yale Researchers Make Breakthrough in Possible Depression Treatment
>> Learn More
UVM Scientists Use Neurolucida and Stereo Investigator to Study Neurons in the Avian Iris
>> Learn More
John Hopkins University Scientists Quantify Neurons with Stereo Investigator
>> Learn More
UCLA Scientists use Stereo Investigator to Quantify Juvenile Neurogenesis in Mice
>> Learn More
DHA Supplementation Prior to Brain Injury May Reduce Severity
>> Learn More
Washington University Researchers use Stereo Investigator to Study Axonal Transport in Parkinson’s Model
>> Learn More
University of Kansas Researchers use Stereo Investigator to Map Fetal Brain Hypoxia Sites
>> Learn More
Stereo Investigator Assists Stanford Stroke Center Scientists in Stem Cell Research
>> Learn More
Toronto Scientists Get First Direct Measurement of Myometrial SMCs in Pregnant Rat Uterus With Stereo Investigator
>> Learn More
Scientists in Spain Track Recovery in the Auditory Cortex
>> Learn More
Stereo Investigator Helps Uncover Autonomic Diabetic Neuropathy Link
>> Learn More
Yale Scientists Say AAV5 is Best for Transduction in Primates
>> Learn More
Mount Sinai Scientists Research the Effect of Aging on Learning and Memory with Stereo Investigator
>> Learn More
Stereo Investigator Helps Washington D.C. Scientists Study the Emergence of Human Language
>> Learn More
Swiss Scientists Use Stereo Investigator to Study Schizophrenia
>> Learn More
Stereo Investigator Aids in Researching Familial Alzheimer’s Disease
>> Learn More
Stem Cell Transplants Aid in Spinal Recovery
>> Learn More
Visit our blog to read more case studies
Download Stereo Investigator - Cleared Tissue Edition product sheet here
Stereo Investigator® - Cleared Tissue Edition 2022 Release Notes
Released February 2023
New Features and Enhancements:
View Full Version History Here.
The Image Volume Fractionator probe uses Systematic Random Sampling throughout the user defined region of interest. Marking just cell tops contained within the counting frames, ensures accurate unbiased results.
You can view large image files seamlessly in the interactive 3D environment.
By annotating 2D sections, create a data file that models the structures within your tissue that can be visualized in the interactive 3D environment, where you can take high resolution screenshots or export movies for publications and presentations.
Analyses in Stereo Investigator Cleared Tissue Edition can be performed on non-cleared tissue as long as the entire region of interest in contained in the image.
| Feature Description | |||
|---|---|---|---|
| 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) |
Stereo Investigator – Cleared Tissue Edition is used across the globe by the most prestigious laboratories.
The Image Volume Fractionator probe, available in Stereo Investigator – Cleared Tissue Edition, is facilitating huge efficiency gains for quantifying the
Stereo Investigator has been cited in over 8,000 published research papers. 5 times more than its nearest competitor.
Rentsch, P., T. Egan, et al.
The ratio of M1 to M2 microglia in the striatum determines the severity of L-Dopa-induced dyskinesiasView Publication
González-Salvatierra, S., C. García-Fontana, et al.
Cardioprotective function of sclerostin by reducing calcium deposition, proliferation, and apoptosis in human vascular smooth muscle cellsView Publication
Bautista, J., M. Á. García-Cabezas, et al.
Pattern of ventral temporal lobe interconnections in rhesus macaquesView Publication
Wang, Z., D. Zheng, et al.
Enabling Survival of Transplanted Neural Precursor Cells in the Ischemic BrainView Publication
Villar-Conde, S., V. Astillero-Lopez, et al.
Synaptic involvement of the human amygdala in Parkinson’s diseaseView Publication
Stimpson, C. D., J. B. Smaers, et al.
Evolutionary scaling and cognitive correlates of primate frontal cortex microstructureView Publication
Yes, the program is compatible with many tissue clearing techniques including CLARITY, iDISCO, uDISCO, SeeDB, Scale, and CUBIC.
The software will work with big image data from most research microscope imaging systems including light sheet, confocal, confocal resonant scanning, two-photon, and fluorescence.
Researchers use Stereo Investigator - Cleared Tissue Edition to perform quantitative analysis of cell populations, cell area and volume, fiber or capillary length, and area and volume of regions of interest.
Both programs allow researchers to obtain quantitative data from tissue specimens. However, Stereo Investigator is for use with physical sections that have been cut on cryostats or microtomes, while Stereo Investigator Cleared Tissue Edition has been tailored to accommodate images that contain an entire region of interest acquired from intact cleared tissue.
No, you can use Stereo Investigator Cleared Tissue Edition with an image of a smaller region of interest within an organ, for example, the caudate putamen of the brain, as long as the entire region of interest is contained in the image.
Yes, you can pair ClearScope, MBF Bioscience’s complete light sheet theta microscope system with Stereo Investigator Cleared Tissue Edition for a complete acquisition to quantitative data analysis pipeline.
"Our Stereo Investigator system works perfectly. We use it every day and don't have any problems whatsoever. Thanks for the good system."
"I have been using the Neurolucida and Stereo Investigator software from MicroBrightField for the last 5 years, and this software has become an essential part of my research program. Whether it is 3 dimensional reconstruction, counting particular particles or mapping the developing and adult vascular, these programs are a scientific must. I personally have been able to push my research in ways that would otherwise not have been possible. Furthermore, the ability to quantitate and detect subtle differences is and will continue to be critical to my scientific program. I would highly recommend these companion programs to any research scientist."
"If there is another program for unbiased stereology, I don't know what it is. This is the gold standard, and I can't say enough to praise the technical support provided by MBF Bioscience."
"We've used Stereo Investigator for 10+ years. The technical support is outstanding, and the company itself it highly responsive to their customers."
"We have used Stereo Investigator for over 10 years now. The service and technical support is always great and they keep adding new updates with more tools. "
"Stereo Investigator is a excellent stereology system. It is easy to work with and the workflows help you to work very efficiently. It is a crucial research tool for obtaining estimates of number of neurons, length of capillaires, length density of fibers, volume measurements of regions of interests or neurons, etc in specific brain regions. I would like to recommend it to everybody who is interested in stereology. In addition, MBF provides excellent technical support and helps you to find the best technical tools for your research challenges on morphometry."
"Stereo Investigator is an excellent research tool for unbiased stereology. In our research group when we set out to quantify the complex network nerves residing in the stomach mucosa. With Stereo Investigator we were able to get accurate estimates of numbers and show differences between your study groups without the introduction of sampling bias."
"Stereo Investigator has been the workhorse of our Microvascular Pathology Lab for the last six years. We have been able to measure vascular density with an accuracy never before available to our studies and more recently SI has provided efficient and precise comparisons of hypoxia and ischemic damage in cerebral vessels and neurons. The helpfulness, availability and experience of the MBF staff has been extraordinary. I would recommend any of their products wholeheartedly."
"Stereo Investigator is great for stereology. Although there is no field representation in the UK, the team in Vermont have been excellent at supporting us in our research applications. With online support and real time meetings and webinars, we've been able to make substantial progress on our research projects. MBF aren't afraid of a technical challenge, which is excellent, and have managed to provide us an excellent solution for our complex research needs."
"Stereo Investigator was particularly useful for estimating cell density in larger brain structures, such as the inferior colliculus."
"Since we purchased our system four years ago, our experience with the MBF equipment and especially the MBF people has been outstanding. I cannot speak any higher about their professionalism and attention for our needs. "
"Stereo Investigator is powerful yet easy to use. The staff at MBF Bioscience is always helpful answering our questions and recommending optimal ways to conduct our stereological analyses."
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:
We offer a free expert demonstration of Stereo Investigator – Cleared Tissue 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.
